-- dump date 20140619_045407 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1042156000001 DNA repair protein RadA; Provisional; Region: PRK11823 1042156000002 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1042156000003 Walker A motif/ATP binding site; other site 1042156000004 ATP binding site [chemical binding]; other site 1042156000005 Walker B motif; other site 1042156000006 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1042156000007 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1042156000008 Clp amino terminal domain; Region: Clp_N; pfam02861 1042156000009 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156000010 Walker A motif; other site 1042156000011 ATP binding site [chemical binding]; other site 1042156000012 Walker B motif; other site 1042156000013 arginine finger; other site 1042156000014 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156000015 Walker A motif; other site 1042156000016 ATP binding site [chemical binding]; other site 1042156000017 Walker B motif; other site 1042156000018 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1042156000019 Predicted transcriptional regulators [Transcription]; Region: COG1725 1042156000020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042156000021 DNA-binding site [nucleotide binding]; DNA binding site 1042156000022 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1042156000023 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1042156000024 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1042156000025 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1042156000026 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 1042156000027 RNA binding surface [nucleotide binding]; other site 1042156000028 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1042156000029 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 1042156000030 V-type ATP synthase subunit B; Provisional; Region: PRK04196 1042156000031 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1042156000032 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 1042156000033 Walker A motif homologous position; other site 1042156000034 Walker B motif; other site 1042156000035 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1042156000036 V-type ATP synthase subunit A; Provisional; Region: PRK04192 1042156000037 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1042156000038 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 1042156000039 Walker A motif/ATP binding site; other site 1042156000040 Walker B motif; other site 1042156000041 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1042156000042 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 1042156000043 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 1042156000044 ATP synthase (C/AC39) subunit; Region: vATP-synt_AC39; pfam01992 1042156000045 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 1042156000046 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 1042156000047 V-type ATP synthase subunit K; Validated; Region: PRK06558 1042156000048 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 1042156000049 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 1042156000050 V-type ATP synthase subunit I; Validated; Region: PRK05771 1042156000051 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 1042156000052 active site 1 [active] 1042156000053 active site 2 [active] 1042156000054 recombination factor protein RarA; Reviewed; Region: PRK13342 1042156000055 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156000056 Walker A motif; other site 1042156000057 ATP binding site [chemical binding]; other site 1042156000058 Walker B motif; other site 1042156000059 arginine finger; other site 1042156000060 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1042156000061 hybrid cluster protein; Provisional; Region: PRK05290 1042156000062 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1042156000063 ACS interaction site; other site 1042156000064 CODH interaction site; other site 1042156000065 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 1042156000066 hybrid metal cluster; other site 1042156000067 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042156000068 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042156000069 ligand binding site [chemical binding]; other site 1042156000070 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1042156000071 Hemerythrin-like domain; Region: Hr-like; cd12108 1042156000072 Fe binding site [ion binding]; other site 1042156000073 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1042156000074 Clp amino terminal domain; Region: Clp_N; pfam02861 1042156000075 Clp amino terminal domain; Region: Clp_N; pfam02861 1042156000076 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156000077 Walker A motif; other site 1042156000078 ATP binding site [chemical binding]; other site 1042156000079 Walker B motif; other site 1042156000080 arginine finger; other site 1042156000081 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156000082 Walker A motif; other site 1042156000083 ATP binding site [chemical binding]; other site 1042156000084 Walker B motif; other site 1042156000085 arginine finger; other site 1042156000086 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1042156000087 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1042156000088 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 1042156000089 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 1042156000090 NlpC/P60 family; Region: NLPC_P60; cl17555 1042156000091 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1042156000092 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1042156000093 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1042156000094 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1042156000095 Ligand binding site [chemical binding]; other site 1042156000096 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1042156000097 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1042156000098 nudix motif; other site 1042156000099 amidophosphoribosyltransferase; Region: purF; TIGR01134 1042156000100 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 1042156000101 active site 1042156000102 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042156000103 active site 1042156000104 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1042156000105 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1042156000106 active site 1042156000107 metal binding site [ion binding]; metal-binding site 1042156000108 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1042156000109 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042156000110 motif II; other site 1042156000111 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1042156000112 Rubredoxin; Region: Rubredoxin; pfam00301 1042156000113 iron binding site [ion binding]; other site 1042156000114 Transglutaminase/protease-like homologues; Region: TGc; smart00460 1042156000115 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1042156000116 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1042156000117 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156000118 Walker A motif; other site 1042156000119 ATP binding site [chemical binding]; other site 1042156000120 Walker B motif; other site 1042156000121 arginine finger; other site 1042156000122 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1042156000123 Sulfatase; Region: Sulfatase; pfam00884 1042156000124 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1042156000125 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1042156000126 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1042156000127 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1042156000128 dimer interface [polypeptide binding]; other site 1042156000129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156000130 catalytic residue [active] 1042156000131 Predicted transcriptional regulator [Transcription]; Region: COG1959 1042156000132 Transcriptional regulator; Region: Rrf2; cl17282 1042156000133 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 1042156000134 active site 1042156000135 metal binding site [ion binding]; metal-binding site 1042156000136 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 1042156000137 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 1042156000138 FAD binding pocket [chemical binding]; other site 1042156000139 FAD binding motif [chemical binding]; other site 1042156000140 phosphate binding motif [ion binding]; other site 1042156000141 beta-alpha-beta structure motif; other site 1042156000142 NAD binding pocket [chemical binding]; other site 1042156000143 Iron coordination center [ion binding]; other site 1042156000144 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1042156000145 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 1042156000146 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1042156000147 4Fe-4S binding domain; Region: Fer4; cl02805 1042156000148 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1042156000149 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1042156000150 molybdopterin cofactor binding site; other site 1042156000151 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1042156000152 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 1042156000153 putative molybdopterin cofactor binding site; other site 1042156000154 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1042156000155 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1042156000156 PGDYG protein; Region: PGDYG; pfam14083 1042156000157 YjcQ protein; Region: YjcQ; pfam09639 1042156000158 YjcQ protein; Region: YjcQ; pfam09639 1042156000159 YjcQ protein; Region: YjcQ; pfam09639 1042156000160 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1042156000161 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 1042156000162 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 1042156000163 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042156000164 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042156000165 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042156000166 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1042156000167 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1042156000168 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042156000169 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156000170 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1042156000171 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1042156000172 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1042156000173 butyrate kinase; Provisional; Region: PRK03011 1042156000174 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1042156000175 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042156000176 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1042156000177 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 1042156000178 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1042156000179 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1042156000180 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042156000181 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 1042156000182 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 1042156000183 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 1042156000184 4Fe-4S binding domain; Region: Fer4; cl02805 1042156000185 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1042156000186 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156000187 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1042156000188 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1042156000189 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1042156000190 active site 1042156000191 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042156000192 active site 2 [active] 1042156000193 active site 1 [active] 1042156000194 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1042156000195 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1042156000196 acyl carrier protein; Provisional; Region: acpP; PRK00982 1042156000197 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 1042156000198 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1042156000199 active site 1042156000200 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156000201 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156000202 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042156000203 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1042156000204 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042156000205 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156000206 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156000207 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156000208 dimerization interface [polypeptide binding]; other site 1042156000209 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042156000210 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042156000211 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1042156000212 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1042156000213 active site 1042156000214 metal binding site [ion binding]; metal-binding site 1042156000215 homotetramer interface [polypeptide binding]; other site 1042156000216 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 1042156000217 active site 1042156000218 dimerization interface [polypeptide binding]; other site 1042156000219 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1042156000220 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1042156000221 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1042156000222 Protein of unknown function (DUF1700); Region: DUF1700; pfam08006 1042156000223 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1042156000224 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1042156000225 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042156000226 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042156000227 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1042156000228 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1042156000229 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1042156000230 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1042156000231 active site 1042156000232 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1042156000233 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1042156000234 UDP-glucose 4-epimerase; Region: PLN02240 1042156000235 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1042156000236 NAD binding site [chemical binding]; other site 1042156000237 homodimer interface [polypeptide binding]; other site 1042156000238 active site 1042156000239 substrate binding site [chemical binding]; other site 1042156000240 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1042156000241 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1042156000242 active site 1042156000243 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 1042156000244 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042156000245 UDP-galactopyranose mutase; Region: GLF; pfam03275 1042156000246 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1042156000247 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1042156000248 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1042156000249 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1042156000250 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1042156000251 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1042156000252 active site 1042156000253 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1042156000254 active site 1042156000255 LicD family; Region: LicD; cl01378 1042156000256 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1042156000257 active site 1042156000258 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 1042156000259 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1042156000260 Bacterial sugar transferase; Region: Bac_transf; cl00939 1042156000261 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1042156000262 O-Antigen ligase; Region: Wzy_C; pfam04932 1042156000263 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1042156000264 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1042156000265 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1042156000266 active site 1042156000267 catalytic site [active] 1042156000268 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1042156000269 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1042156000270 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042156000271 NAD(P) binding site [chemical binding]; other site 1042156000272 active site 1042156000273 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1042156000274 substrate binding site; other site 1042156000275 dimer interface; other site 1042156000276 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1042156000277 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1042156000278 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1042156000279 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042156000280 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1042156000281 active site 1042156000282 nucleotide binding site [chemical binding]; other site 1042156000283 HIGH motif; other site 1042156000284 KMSKS motif; other site 1042156000285 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1042156000286 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1042156000287 Walker A/P-loop; other site 1042156000288 ATP binding site [chemical binding]; other site 1042156000289 Q-loop/lid; other site 1042156000290 ABC transporter signature motif; other site 1042156000291 Walker B; other site 1042156000292 D-loop; other site 1042156000293 H-loop/switch region; other site 1042156000294 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1042156000295 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1042156000296 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1042156000297 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 1042156000298 active site 1042156000299 catalytic triad [active] 1042156000300 oxyanion hole [active] 1042156000301 formamidase; Provisional; Region: amiF; PRK13287 1042156000302 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 1042156000303 multimer interface [polypeptide binding]; other site 1042156000304 active site 1042156000305 catalytic triad [active] 1042156000306 dimer interface [polypeptide binding]; other site 1042156000307 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 1042156000308 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042156000309 putative oxidoreductase; Provisional; Region: PRK08275 1042156000310 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1042156000311 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1042156000312 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042156000313 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1042156000314 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1042156000315 FMN binding site [chemical binding]; other site 1042156000316 substrate binding site [chemical binding]; other site 1042156000317 putative catalytic residue [active] 1042156000318 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1042156000319 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1042156000320 active site 1042156000321 catalytic triad [active] 1042156000322 dimer interface [polypeptide binding]; other site 1042156000323 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1042156000324 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1042156000325 ABC-ATPase subunit interface; other site 1042156000326 dimer interface [polypeptide binding]; other site 1042156000327 putative PBP binding regions; other site 1042156000328 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1042156000329 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1042156000330 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1042156000331 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1042156000332 intersubunit interface [polypeptide binding]; other site 1042156000333 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1042156000334 metal binding site 2 [ion binding]; metal-binding site 1042156000335 putative DNA binding helix; other site 1042156000336 metal binding site 1 [ion binding]; metal-binding site 1042156000337 dimer interface [polypeptide binding]; other site 1042156000338 structural Zn2+ binding site [ion binding]; other site 1042156000339 Flavodoxin domain; Region: Flavodoxin_5; cl17428 1042156000340 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156000341 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042156000342 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1042156000343 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042156000344 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1042156000345 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1042156000346 YcfA-like protein; Region: YcfA; cl00752 1042156000347 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1042156000348 amidase catalytic site [active] 1042156000349 Zn binding residues [ion binding]; other site 1042156000350 substrate binding site [chemical binding]; other site 1042156000351 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1042156000352 Bacteriophage holin; Region: Phage_holin_1; pfam04531 1042156000353 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1042156000354 trimer interface [polypeptide binding]; other site 1042156000355 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 1042156000356 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 1042156000357 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 1042156000358 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 1042156000359 TIGR02594 family protein; Region: TIGR02594 1042156000360 3D domain; Region: 3D; cl01439 1042156000361 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1042156000362 Phage XkdN-like protein; Region: XkdN; pfam08890 1042156000363 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 1042156000364 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 1042156000365 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 1042156000366 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 1042156000367 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 1042156000368 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 1042156000369 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1042156000370 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 1042156000371 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 1042156000372 Terminase small subunit; Region: Terminase_2; pfam03592 1042156000373 Phage terminase large subunit; Region: Terminase_3; cl12054 1042156000374 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1042156000375 PGDYG protein; Region: PGDYG; pfam14083 1042156000376 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 1042156000377 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156000378 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156000379 UGMP family protein; Validated; Region: PRK09604 1042156000380 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1042156000381 ribonuclease Z; Reviewed; Region: PRK00055 1042156000382 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1042156000383 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042156000384 Coenzyme A binding pocket [chemical binding]; other site 1042156000385 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1042156000386 Glycoprotease family; Region: Peptidase_M22; pfam00814 1042156000387 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1042156000388 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1042156000389 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1042156000390 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1042156000391 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1042156000392 RNA binding site [nucleotide binding]; other site 1042156000393 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 1042156000394 Protein of unknown function (DUF975); Region: DUF975; cl10504 1042156000395 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 1042156000396 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1042156000397 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1042156000398 hypothetical protein; Provisional; Region: PRK04435 1042156000399 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1042156000400 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1042156000401 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1042156000402 CysD dimerization site [polypeptide binding]; other site 1042156000403 G1 box; other site 1042156000404 putative GEF interaction site [polypeptide binding]; other site 1042156000405 GTP/Mg2+ binding site [chemical binding]; other site 1042156000406 Switch I region; other site 1042156000407 G2 box; other site 1042156000408 G3 box; other site 1042156000409 Switch II region; other site 1042156000410 G4 box; other site 1042156000411 G5 box; other site 1042156000412 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 1042156000413 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 1042156000414 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1042156000415 ligand-binding site [chemical binding]; other site 1042156000416 peptide chain release factor 2; Provisional; Region: PRK05589 1042156000417 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1042156000418 RF-1 domain; Region: RF-1; pfam00472 1042156000419 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1042156000420 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 1042156000421 active site 1042156000422 substrate binding site [chemical binding]; other site 1042156000423 metal binding site [ion binding]; metal-binding site 1042156000424 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 1042156000425 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1042156000426 putative NAD(P) binding site [chemical binding]; other site 1042156000427 putative catalytic Zn binding site [ion binding]; other site 1042156000428 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1042156000429 substrate binding site; other site 1042156000430 dimer interface; other site 1042156000431 LicD family; Region: LicD; pfam04991 1042156000432 LicD family; Region: LicD; pfam04991 1042156000433 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1042156000434 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1042156000435 trimer interface [polypeptide binding]; other site 1042156000436 active site 1042156000437 substrate binding site [chemical binding]; other site 1042156000438 CoA binding site [chemical binding]; other site 1042156000439 2-isopropylmalate synthase; Validated; Region: PRK03739 1042156000440 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1042156000441 active site 1042156000442 catalytic residues [active] 1042156000443 metal binding site [ion binding]; metal-binding site 1042156000444 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1042156000445 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1042156000446 dimerization domain swap beta strand [polypeptide binding]; other site 1042156000447 regulatory protein interface [polypeptide binding]; other site 1042156000448 active site 1042156000449 regulatory phosphorylation site [posttranslational modification]; other site 1042156000450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1042156000451 YbbR-like protein; Region: YbbR; pfam07949 1042156000452 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1042156000453 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1042156000454 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1042156000455 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1042156000456 AAA domain; Region: AAA_30; pfam13604 1042156000457 Family description; Region: UvrD_C_2; pfam13538 1042156000458 rod shape-determining protein MreB; Provisional; Region: PRK13930 1042156000459 MreB and similar proteins; Region: MreB_like; cd10225 1042156000460 nucleotide binding site [chemical binding]; other site 1042156000461 Mg binding site [ion binding]; other site 1042156000462 putative protofilament interaction site [polypeptide binding]; other site 1042156000463 RodZ interaction site [polypeptide binding]; other site 1042156000464 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1042156000465 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1042156000466 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1042156000467 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1042156000468 excinuclease ABC subunit B; Provisional; Region: PRK05298 1042156000469 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042156000470 ATP binding site [chemical binding]; other site 1042156000471 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042156000472 nucleotide binding region [chemical binding]; other site 1042156000473 ATP-binding site [chemical binding]; other site 1042156000474 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1042156000475 UvrB/uvrC motif; Region: UVR; pfam02151 1042156000476 3D domain; Region: 3D; cl01439 1042156000477 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1042156000478 putative transporter; Provisional; Region: PRK10484 1042156000479 Na binding site [ion binding]; other site 1042156000480 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156000481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156000482 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042156000483 dimerization interface [polypeptide binding]; other site 1042156000484 substrate binding pocket [chemical binding]; other site 1042156000485 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1042156000486 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 1042156000487 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1042156000488 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 1042156000489 dimerization interface [polypeptide binding]; other site 1042156000490 ATP binding site [chemical binding]; other site 1042156000491 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 1042156000492 dimerization interface [polypeptide binding]; other site 1042156000493 ATP binding site [chemical binding]; other site 1042156000494 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1042156000495 conserved cys residue [active] 1042156000496 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042156000497 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 1042156000498 FAD binding site [chemical binding]; other site 1042156000499 homotetramer interface [polypeptide binding]; other site 1042156000500 substrate binding pocket [chemical binding]; other site 1042156000501 catalytic base [active] 1042156000502 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1042156000503 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1042156000504 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1042156000505 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1042156000506 Ligand binding site [chemical binding]; other site 1042156000507 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1042156000508 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042156000509 FAD binding domain; Region: FAD_binding_4; pfam01565 1042156000510 Predicted transcriptional regulators [Transcription]; Region: COG1733 1042156000511 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1042156000512 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042156000513 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042156000514 DNA-binding site [nucleotide binding]; DNA binding site 1042156000515 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1042156000516 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042156000517 Putative cyclase; Region: Cyclase; cl00814 1042156000518 Putative cyclase; Region: Cyclase; cl00814 1042156000519 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1042156000520 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042156000521 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042156000522 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042156000523 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042156000524 NAD(P) binding site [chemical binding]; other site 1042156000525 active site 1042156000526 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1042156000527 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042156000528 Walker A/P-loop; other site 1042156000529 ATP binding site [chemical binding]; other site 1042156000530 Q-loop/lid; other site 1042156000531 ABC transporter signature motif; other site 1042156000532 Walker B; other site 1042156000533 D-loop; other site 1042156000534 H-loop/switch region; other site 1042156000535 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1042156000536 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042156000537 TM-ABC transporter signature motif; other site 1042156000538 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1042156000539 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1042156000540 zinc binding site [ion binding]; other site 1042156000541 putative ligand binding site [chemical binding]; other site 1042156000542 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042156000543 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 1042156000544 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1042156000545 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1042156000546 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1042156000547 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1042156000548 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1042156000549 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042156000550 active site 1042156000551 HIGH motif; other site 1042156000552 nucleotide binding site [chemical binding]; other site 1042156000553 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1042156000554 KMSK motif region; other site 1042156000555 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1042156000556 tRNA binding surface [nucleotide binding]; other site 1042156000557 anticodon binding site; other site 1042156000558 cell division protein FtsZ; Validated; Region: PRK09330 1042156000559 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 1042156000560 nucleotide binding site [chemical binding]; other site 1042156000561 SulA interaction site; other site 1042156000562 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1042156000563 cell division protein FtsW; Region: ftsW; TIGR02614 1042156000564 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 1042156000565 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042156000566 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042156000567 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042156000568 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1042156000569 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 1042156000570 Mg++ binding site [ion binding]; other site 1042156000571 putative catalytic motif [active] 1042156000572 putative substrate binding site [chemical binding]; other site 1042156000573 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1042156000574 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1042156000575 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1042156000576 MraW methylase family; Region: Methyltransf_5; pfam01795 1042156000577 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1042156000578 cell division protein MraZ; Reviewed; Region: PRK00326 1042156000579 MraZ protein; Region: MraZ; pfam02381 1042156000580 MraZ protein; Region: MraZ; pfam02381 1042156000581 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 1042156000582 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1042156000583 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1042156000584 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1042156000585 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1042156000586 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 1042156000587 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1042156000588 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 1042156000589 active site 1042156000590 dimer interface [polypeptide binding]; other site 1042156000591 motif 1; other site 1042156000592 motif 2; other site 1042156000593 motif 3; other site 1042156000594 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 1042156000595 anticodon binding site; other site 1042156000596 hypothetical protein; Provisional; Region: PRK05590 1042156000597 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1042156000598 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 1042156000599 GDP-binding site [chemical binding]; other site 1042156000600 ACT binding site; other site 1042156000601 IMP binding site; other site 1042156000602 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1042156000603 CoenzymeA binding site [chemical binding]; other site 1042156000604 subunit interaction site [polypeptide binding]; other site 1042156000605 PHB binding site; other site 1042156000606 EDD domain protein, DegV family; Region: DegV; TIGR00762 1042156000607 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1042156000608 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1042156000609 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 1042156000610 ring oligomerisation interface [polypeptide binding]; other site 1042156000611 ATP/Mg binding site [chemical binding]; other site 1042156000612 stacking interactions; other site 1042156000613 hinge regions; other site 1042156000614 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 1042156000615 oligomerisation interface [polypeptide binding]; other site 1042156000616 mobile loop; other site 1042156000617 roof hairpin; other site 1042156000618 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042156000619 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1042156000620 active site 1042156000621 motif I; other site 1042156000622 motif II; other site 1042156000623 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1042156000624 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1042156000625 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042156000626 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1042156000627 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 1042156000628 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 1042156000629 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1042156000630 CAP-like domain; other site 1042156000631 active site 1042156000632 primary dimer interface [polypeptide binding]; other site 1042156000633 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042156000634 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1042156000635 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156000636 Mg2+ binding site [ion binding]; other site 1042156000637 G-X-G motif; other site 1042156000638 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1042156000639 anchoring element; other site 1042156000640 dimer interface [polypeptide binding]; other site 1042156000641 ATP binding site [chemical binding]; other site 1042156000642 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 1042156000643 active site 1042156000644 putative metal-binding site [ion binding]; other site 1042156000645 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1042156000646 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1042156000647 ligand binding site [chemical binding]; other site 1042156000648 active site 1042156000649 UGI interface [polypeptide binding]; other site 1042156000650 catalytic site [active] 1042156000651 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 1042156000652 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1042156000653 substrate binding site [chemical binding]; other site 1042156000654 glutamase interaction surface [polypeptide binding]; other site 1042156000655 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1042156000656 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1042156000657 putative active site [active] 1042156000658 oxyanion strand; other site 1042156000659 catalytic triad [active] 1042156000660 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042156000661 dimer interface [polypeptide binding]; other site 1042156000662 phosphorylation site [posttranslational modification] 1042156000663 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156000664 ATP binding site [chemical binding]; other site 1042156000665 Mg2+ binding site [ion binding]; other site 1042156000666 G-X-G motif; other site 1042156000667 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042156000668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156000669 active site 1042156000670 phosphorylation site [posttranslational modification] 1042156000671 intermolecular recognition site; other site 1042156000672 dimerization interface [polypeptide binding]; other site 1042156000673 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042156000674 DNA binding site [nucleotide binding] 1042156000675 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1042156000676 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1042156000677 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042156000678 motif II; other site 1042156000679 Nitroreductase family; Region: Nitroreductase; pfam00881 1042156000680 FMN binding site [chemical binding]; other site 1042156000681 dimer interface [polypeptide binding]; other site 1042156000682 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1042156000683 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1042156000684 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1042156000685 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1042156000686 putative catalytic cysteine [active] 1042156000687 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1042156000688 Na binding site [ion binding]; other site 1042156000689 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 1042156000690 putative metal binding site [ion binding]; other site 1042156000691 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1042156000692 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1042156000693 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1042156000694 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1042156000695 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1042156000696 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1042156000697 Domain of unknown function (DUF202); Region: DUF202; pfam02656 1042156000698 elongation factor Tu; Reviewed; Region: PRK00049 1042156000699 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1042156000700 G1 box; other site 1042156000701 GEF interaction site [polypeptide binding]; other site 1042156000702 GTP/Mg2+ binding site [chemical binding]; other site 1042156000703 Switch I region; other site 1042156000704 G2 box; other site 1042156000705 G3 box; other site 1042156000706 Switch II region; other site 1042156000707 G4 box; other site 1042156000708 G5 box; other site 1042156000709 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1042156000710 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1042156000711 Antibiotic Binding Site [chemical binding]; other site 1042156000712 elongation factor G; Reviewed; Region: PRK00007 1042156000713 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1042156000714 G1 box; other site 1042156000715 putative GEF interaction site [polypeptide binding]; other site 1042156000716 GTP/Mg2+ binding site [chemical binding]; other site 1042156000717 Switch I region; other site 1042156000718 G2 box; other site 1042156000719 G3 box; other site 1042156000720 Switch II region; other site 1042156000721 G4 box; other site 1042156000722 G5 box; other site 1042156000723 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 1042156000724 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 1042156000725 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 1042156000726 30S ribosomal protein S7; Validated; Region: PRK05302 1042156000727 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 1042156000728 S17 interaction site [polypeptide binding]; other site 1042156000729 S8 interaction site; other site 1042156000730 16S rRNA interaction site [nucleotide binding]; other site 1042156000731 streptomycin interaction site [chemical binding]; other site 1042156000732 23S rRNA interaction site [nucleotide binding]; other site 1042156000733 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1042156000734 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1042156000735 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1042156000736 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1042156000737 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1042156000738 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1042156000739 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1042156000740 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1042156000741 G-loop; other site 1042156000742 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 1042156000743 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1042156000744 DNA binding site [nucleotide binding] 1042156000745 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1042156000746 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1042156000747 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1042156000748 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1042156000749 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1042156000750 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 1042156000751 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 1042156000752 RPB1 interaction site [polypeptide binding]; other site 1042156000753 RPB10 interaction site [polypeptide binding]; other site 1042156000754 RPB11 interaction site [polypeptide binding]; other site 1042156000755 RPB3 interaction site [polypeptide binding]; other site 1042156000756 RPB12 interaction site [polypeptide binding]; other site 1042156000757 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 1042156000758 core dimer interface [polypeptide binding]; other site 1042156000759 peripheral dimer interface [polypeptide binding]; other site 1042156000760 L10 interface [polypeptide binding]; other site 1042156000761 L11 interface [polypeptide binding]; other site 1042156000762 putative EF-Tu interaction site [polypeptide binding]; other site 1042156000763 putative EF-G interaction site [polypeptide binding]; other site 1042156000764 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 1042156000765 23S rRNA interface [nucleotide binding]; other site 1042156000766 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1042156000767 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 1042156000768 mRNA/rRNA interface [nucleotide binding]; other site 1042156000769 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1042156000770 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 1042156000771 23S rRNA interface [nucleotide binding]; other site 1042156000772 L7/L12 interface [polypeptide binding]; other site 1042156000773 putative thiostrepton binding site; other site 1042156000774 L25 interface [polypeptide binding]; other site 1042156000775 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1042156000776 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1042156000777 putative homodimer interface [polypeptide binding]; other site 1042156000778 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1042156000779 heterodimer interface [polypeptide binding]; other site 1042156000780 homodimer interface [polypeptide binding]; other site 1042156000781 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1042156000782 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1042156000783 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1042156000784 putative NADH binding site [chemical binding]; other site 1042156000785 putative active site [active] 1042156000786 nudix motif; other site 1042156000787 putative metal binding site [ion binding]; other site 1042156000788 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1042156000789 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042156000790 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1042156000791 Chromate transporter; Region: Chromate_transp; cl17781 1042156000792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156000793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156000794 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 1042156000795 putative dimerization interface [polypeptide binding]; other site 1042156000796 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1042156000797 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1042156000798 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042156000799 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156000800 non-specific DNA binding site [nucleotide binding]; other site 1042156000801 salt bridge; other site 1042156000802 sequence-specific DNA binding site [nucleotide binding]; other site 1042156000803 Helix-turn-helix domain; Region: HTH_17; pfam12728 1042156000804 PBP superfamily domain; Region: PBP_like; pfam12727 1042156000805 TOBE domain; Region: TOBE; cl01440 1042156000806 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1042156000807 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1042156000808 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1042156000809 synthetase active site [active] 1042156000810 NTP binding site [chemical binding]; other site 1042156000811 metal binding site [ion binding]; metal-binding site 1042156000812 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1042156000813 putative active site [active] 1042156000814 putative CoA binding site [chemical binding]; other site 1042156000815 nudix motif; other site 1042156000816 metal binding site [ion binding]; metal-binding site 1042156000817 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 1042156000818 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1042156000819 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1042156000820 classical (c) SDRs; Region: SDR_c; cd05233 1042156000821 NAD(P) binding site [chemical binding]; other site 1042156000822 active site 1042156000823 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1042156000824 active site residue [active] 1042156000825 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 1042156000826 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1042156000827 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1042156000828 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1042156000829 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1042156000830 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1042156000831 hypothetical protein; Provisional; Region: PRK00955 1042156000832 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1042156000833 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1042156000834 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1042156000835 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1042156000836 active site 1042156000837 NAD binding site [chemical binding]; other site 1042156000838 metal binding site [ion binding]; metal-binding site 1042156000839 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1042156000840 allantoate amidohydrolase; Reviewed; Region: PRK09290 1042156000841 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1042156000842 active site 1042156000843 metal binding site [ion binding]; metal-binding site 1042156000844 dimer interface [polypeptide binding]; other site 1042156000845 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1042156000846 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 1042156000847 homodimer interface [polypeptide binding]; other site 1042156000848 active site 1042156000849 FMN binding site [chemical binding]; other site 1042156000850 substrate binding site [chemical binding]; other site 1042156000851 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156000852 phenylhydantoinase; Validated; Region: PRK08323 1042156000853 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1042156000854 tetramer interface [polypeptide binding]; other site 1042156000855 active site 1042156000856 NMT1/THI5 like; Region: NMT1; pfam09084 1042156000857 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1042156000858 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042156000859 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 1042156000860 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042156000861 dimer interface [polypeptide binding]; other site 1042156000862 conserved gate region; other site 1042156000863 putative PBP binding loops; other site 1042156000864 ABC-ATPase subunit interface; other site 1042156000865 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1042156000866 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042156000867 Walker A/P-loop; other site 1042156000868 ATP binding site [chemical binding]; other site 1042156000869 Q-loop/lid; other site 1042156000870 ABC transporter signature motif; other site 1042156000871 Walker B; other site 1042156000872 D-loop; other site 1042156000873 H-loop/switch region; other site 1042156000874 hypothetical protein; Provisional; Region: PRK06062 1042156000875 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1042156000876 inhibitor-cofactor binding pocket; inhibition site 1042156000877 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156000878 catalytic residue [active] 1042156000879 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1042156000880 DRTGG domain; Region: DRTGG; pfam07085 1042156000881 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042156000882 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 1042156000883 50S ribosomal protein L29; Reviewed; Region: PRK00306 1042156000884 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 1042156000885 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1042156000886 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042156000887 catalytic residue [active] 1042156000888 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 1042156000889 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1042156000890 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1042156000891 protein binding site [polypeptide binding]; other site 1042156000892 serine/threonine transporter SstT; Provisional; Region: PRK13628 1042156000893 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042156000894 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1042156000895 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1042156000896 FMN binding site [chemical binding]; other site 1042156000897 active site 1042156000898 catalytic residues [active] 1042156000899 substrate binding site [chemical binding]; other site 1042156000900 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1042156000901 Cation efflux family; Region: Cation_efflux; cl00316 1042156000902 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1042156000903 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1042156000904 metal-binding site [ion binding] 1042156000905 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1042156000906 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042156000907 motif II; other site 1042156000908 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1042156000909 metal-binding site [ion binding] 1042156000910 C-terminal domain of Faecalibacterium prausnitzii A2-165 FrmR , and related domains; this domain family was previously known as part of DUF156; Region: FpFrmR-Cterm-like_DUF156; cd10156 1042156000911 putative homodimer interface [polypeptide binding]; other site 1042156000912 putative homotetramer interface [polypeptide binding]; other site 1042156000913 putative allosteric switch controlling residues; other site 1042156000914 putative metal binding site [ion binding]; other site 1042156000915 putative homodimer-homodimer interface [polypeptide binding]; other site 1042156000916 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 1042156000917 active site clefts [active] 1042156000918 zinc binding site [ion binding]; other site 1042156000919 dimer interface [polypeptide binding]; other site 1042156000920 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1042156000921 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042156000922 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1042156000923 Walker A/P-loop; other site 1042156000924 ATP binding site [chemical binding]; other site 1042156000925 Q-loop/lid; other site 1042156000926 ABC transporter signature motif; other site 1042156000927 Walker B; other site 1042156000928 D-loop; other site 1042156000929 H-loop/switch region; other site 1042156000930 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1042156000931 Part of AAA domain; Region: AAA_19; pfam13245 1042156000932 Family description; Region: UvrD_C_2; pfam13538 1042156000933 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1042156000934 MarR family; Region: MarR; pfam01047 1042156000935 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 1042156000936 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1042156000937 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1042156000938 dimer interface [polypeptide binding]; other site 1042156000939 active site 1042156000940 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042156000941 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1042156000942 NAD(P) binding site [chemical binding]; other site 1042156000943 homotetramer interface [polypeptide binding]; other site 1042156000944 homodimer interface [polypeptide binding]; other site 1042156000945 active site 1042156000946 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1042156000947 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1042156000948 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1042156000949 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1042156000950 FMN binding site [chemical binding]; other site 1042156000951 substrate binding site [chemical binding]; other site 1042156000952 putative catalytic residue [active] 1042156000953 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1042156000954 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 1042156000955 dimer interface [polypeptide binding]; other site 1042156000956 active site 1042156000957 CoA binding pocket [chemical binding]; other site 1042156000958 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1042156000959 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1042156000960 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1042156000961 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042156000962 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042156000963 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1042156000964 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1042156000965 carboxyltransferase (CT) interaction site; other site 1042156000966 biotinylation site [posttranslational modification]; other site 1042156000967 acyl carrier protein; Provisional; Region: acpP; PRK00982 1042156000968 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042156000969 EamA-like transporter family; Region: EamA; pfam00892 1042156000970 EamA-like transporter family; Region: EamA; cl17759 1042156000971 biotin synthase; Region: bioB; TIGR00433 1042156000972 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156000973 FeS/SAM binding site; other site 1042156000974 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1042156000975 endonuclease IV; Provisional; Region: PRK01060 1042156000976 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1042156000977 AP (apurinic/apyrimidinic) site pocket; other site 1042156000978 DNA interaction; other site 1042156000979 Metal-binding active site; metal-binding site 1042156000980 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1042156000981 MraW methylase family; Region: Methyltransf_5; cl17771 1042156000982 Uncharacterized conserved protein [Function unknown]; Region: COG2006 1042156000983 Domain of unknown function (DUF362); Region: DUF362; pfam04015 1042156000984 CTP synthetase; Validated; Region: pyrG; PRK05380 1042156000985 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 1042156000986 Catalytic site [active] 1042156000987 active site 1042156000988 UTP binding site [chemical binding]; other site 1042156000989 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1042156000990 active site 1042156000991 putative oxyanion hole; other site 1042156000992 catalytic triad [active] 1042156000993 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1042156000994 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1042156000995 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1042156000996 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1042156000997 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042156000998 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1042156000999 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1042156001000 active site 1042156001001 dimer interface [polypeptide binding]; other site 1042156001002 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1042156001003 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 1042156001004 active site 1042156001005 FMN binding site [chemical binding]; other site 1042156001006 substrate binding site [chemical binding]; other site 1042156001007 3Fe-4S cluster binding site [ion binding]; other site 1042156001008 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1042156001009 domain interface; other site 1042156001010 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 1042156001011 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 1042156001012 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1042156001013 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1042156001014 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1042156001015 active site 1042156001016 dimer interface [polypeptide binding]; other site 1042156001017 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1042156001018 Ligand Binding Site [chemical binding]; other site 1042156001019 Molecular Tunnel; other site 1042156001020 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 1042156001021 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 1042156001022 active site 1042156001023 tetramer interface [polypeptide binding]; other site 1042156001024 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042156001025 active site 1042156001026 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1042156001027 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1042156001028 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1042156001029 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 1042156001030 ANTAR domain; Region: ANTAR; pfam03861 1042156001031 B12 binding domain; Region: B12-binding; pfam02310 1042156001032 B12 binding site [chemical binding]; other site 1042156001033 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1042156001034 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 1042156001035 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1042156001036 AzlC protein; Region: AzlC; pfam03591 1042156001037 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1042156001038 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1042156001039 Pirin-related protein [General function prediction only]; Region: COG1741 1042156001040 Pirin; Region: Pirin; pfam02678 1042156001041 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1042156001042 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1042156001043 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1042156001044 putative ligand binding site [chemical binding]; other site 1042156001045 putative NAD binding site [chemical binding]; other site 1042156001046 catalytic site [active] 1042156001047 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1042156001048 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1042156001049 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1042156001050 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1042156001051 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 1042156001052 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1042156001053 homotrimer interaction site [polypeptide binding]; other site 1042156001054 putative active site [active] 1042156001055 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1042156001056 Ligand binding site; other site 1042156001057 carbamate kinase; Reviewed; Region: PRK12686 1042156001058 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1042156001059 putative substrate binding site [chemical binding]; other site 1042156001060 nucleotide binding site [chemical binding]; other site 1042156001061 nucleotide binding site [chemical binding]; other site 1042156001062 homodimer interface [polypeptide binding]; other site 1042156001063 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 1042156001064 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1042156001065 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1042156001066 peptidase; Reviewed; Region: PRK13004 1042156001067 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 1042156001068 putative metal binding site [ion binding]; other site 1042156001069 putative dimer interface [polypeptide binding]; other site 1042156001070 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1042156001071 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 1042156001072 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042156001073 catalytic residue [active] 1042156001074 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 1042156001075 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1042156001076 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042156001077 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042156001078 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042156001079 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1042156001080 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042156001081 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1042156001082 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042156001083 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042156001084 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 1042156001085 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042156001086 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 1042156001087 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042156001088 active site 1042156001089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1042156001090 YheO-like PAS domain; Region: PAS_6; pfam08348 1042156001091 HTH domain; Region: HTH_22; pfam13309 1042156001092 xanthine permease; Region: pbuX; TIGR03173 1042156001093 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 1042156001094 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 1042156001095 metal binding site [ion binding]; metal-binding site 1042156001096 dimer interface [polypeptide binding]; other site 1042156001097 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 1042156001098 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1042156001099 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 1042156001100 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 1042156001101 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 1042156001102 CPxP motif; other site 1042156001103 DsrE/DsrF-like family; Region: DrsE; pfam02635 1042156001104 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1042156001105 selenophosphate synthetase; Provisional; Region: PRK00943 1042156001106 dimerization interface [polypeptide binding]; other site 1042156001107 putative ATP binding site [chemical binding]; other site 1042156001108 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 1042156001109 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042156001110 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042156001111 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042156001112 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042156001113 catalytic loop [active] 1042156001114 iron binding site [ion binding]; other site 1042156001115 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042156001116 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1042156001117 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1042156001118 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1042156001119 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 1042156001120 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 1042156001121 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1042156001122 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1042156001123 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1042156001124 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042156001125 catalytic residue [active] 1042156001126 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1042156001127 Cation efflux family; Region: Cation_efflux; pfam01545 1042156001128 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1042156001129 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1042156001130 nucleotide binding site [chemical binding]; other site 1042156001131 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1042156001132 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1042156001133 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1042156001134 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1042156001135 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1042156001136 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1042156001137 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1042156001138 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1042156001139 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156001140 MFS/sugar transport protein; Region: MFS_2; pfam13347 1042156001141 putative substrate translocation pore; other site 1042156001142 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042156001143 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156001144 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 1042156001145 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1042156001146 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1042156001147 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1042156001148 DNA binding site [nucleotide binding] 1042156001149 active site 1042156001150 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1042156001151 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1042156001152 catalytic core [active] 1042156001153 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 1042156001154 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1042156001155 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1042156001156 active site 1042156001157 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 1042156001158 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1042156001159 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1042156001160 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042156001161 ATP binding site [chemical binding]; other site 1042156001162 putative Mg++ binding site [ion binding]; other site 1042156001163 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1042156001164 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 1042156001165 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1042156001166 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1042156001167 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1042156001168 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1042156001169 Fic family protein [Function unknown]; Region: COG3177 1042156001170 Fic/DOC family; Region: Fic; pfam02661 1042156001171 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1042156001172 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1042156001173 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042156001174 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156001175 non-specific DNA binding site [nucleotide binding]; other site 1042156001176 salt bridge; other site 1042156001177 sequence-specific DNA binding site [nucleotide binding]; other site 1042156001178 EamA-like transporter family; Region: EamA; pfam00892 1042156001179 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042156001180 EamA-like transporter family; Region: EamA; pfam00892 1042156001181 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1042156001182 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1042156001183 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042156001184 catalytic residue [active] 1042156001185 Fe-S metabolism associated domain; Region: SufE; cl00951 1042156001186 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1042156001187 trimer interface [polypeptide binding]; other site 1042156001188 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1042156001189 Mn binding site [ion binding]; other site 1042156001190 substrate binding site [chemical binding]; other site 1042156001191 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042156001192 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1042156001193 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1042156001194 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042156001195 FMN-binding domain; Region: FMN_bind; cl01081 1042156001196 FMN-binding domain; Region: FMN_bind; cl01081 1042156001197 FMN-binding domain; Region: FMN_bind; cl01081 1042156001198 FMN-binding domain; Region: FMN_bind; cl01081 1042156001199 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1042156001200 ApbE family; Region: ApbE; pfam02424 1042156001201 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1042156001202 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1042156001203 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1042156001204 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156001205 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1042156001206 putative substrate translocation pore; other site 1042156001207 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1042156001208 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1042156001209 active site 1042156001210 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1042156001211 FMN binding site [chemical binding]; other site 1042156001212 dimer interface [polypeptide binding]; other site 1042156001213 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1042156001214 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1042156001215 Predicted transcriptional regulators [Transcription]; Region: COG1733 1042156001216 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1042156001217 Cupin domain; Region: Cupin_2; cl17218 1042156001218 Cupin domain; Region: Cupin_2; cl17218 1042156001219 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1042156001220 amphipathic channel; other site 1042156001221 Asn-Pro-Ala signature motifs; other site 1042156001222 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1042156001223 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042156001224 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 1042156001225 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 1042156001226 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1042156001227 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1042156001228 metal binding site [ion binding]; metal-binding site 1042156001229 enolase; Provisional; Region: eno; PRK00077 1042156001230 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 1042156001231 dimer interface [polypeptide binding]; other site 1042156001232 metal binding site [ion binding]; metal-binding site 1042156001233 substrate binding pocket [chemical binding]; other site 1042156001234 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1042156001235 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1042156001236 Pyruvate formate lyase 1; Region: PFL1; cd01678 1042156001237 coenzyme A binding site [chemical binding]; other site 1042156001238 active site 1042156001239 catalytic residues [active] 1042156001240 glycine loop; other site 1042156001241 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 1042156001242 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156001243 FeS/SAM binding site; other site 1042156001244 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042156001245 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042156001246 ligand binding site [chemical binding]; other site 1042156001247 flexible hinge region; other site 1042156001248 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1042156001249 putative switch regulator; other site 1042156001250 non-specific DNA interactions [nucleotide binding]; other site 1042156001251 DNA binding site [nucleotide binding] 1042156001252 sequence specific DNA binding site [nucleotide binding]; other site 1042156001253 putative cAMP binding site [chemical binding]; other site 1042156001254 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1042156001255 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042156001256 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1042156001257 substrate binding site [chemical binding]; other site 1042156001258 multimerization interface [polypeptide binding]; other site 1042156001259 ATP binding site [chemical binding]; other site 1042156001260 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1042156001261 thiamine phosphate binding site [chemical binding]; other site 1042156001262 active site 1042156001263 pyrophosphate binding site [ion binding]; other site 1042156001264 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1042156001265 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1042156001266 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1042156001267 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1042156001268 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156001269 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1042156001270 FeS/SAM binding site; other site 1042156001271 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042156001272 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1042156001273 acyl-activating enzyme (AAE) consensus motif; other site 1042156001274 active site 1042156001275 AMP binding site [chemical binding]; other site 1042156001276 CoA binding site [chemical binding]; other site 1042156001277 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 1042156001278 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156001279 S-adenosylmethionine binding site [chemical binding]; other site 1042156001280 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1042156001281 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042156001282 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1042156001283 Cysteine-rich domain; Region: CCG; pfam02754 1042156001284 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042156001285 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1042156001286 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042156001287 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042156001288 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042156001289 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042156001290 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1042156001291 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1042156001292 catalytic Zn binding site [ion binding]; other site 1042156001293 NAD binding site [chemical binding]; other site 1042156001294 structural Zn binding site [ion binding]; other site 1042156001295 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1042156001296 Na binding site [ion binding]; other site 1042156001297 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156001298 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156001299 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042156001300 dimerization interface [polypeptide binding]; other site 1042156001301 substrate binding pocket [chemical binding]; other site 1042156001302 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042156001303 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156001304 non-specific DNA binding site [nucleotide binding]; other site 1042156001305 salt bridge; other site 1042156001306 sequence-specific DNA binding site [nucleotide binding]; other site 1042156001307 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1042156001308 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1042156001309 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 1042156001310 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1042156001311 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1042156001312 Walker A/P-loop; other site 1042156001313 ATP binding site [chemical binding]; other site 1042156001314 Q-loop/lid; other site 1042156001315 ABC transporter signature motif; other site 1042156001316 Walker B; other site 1042156001317 D-loop; other site 1042156001318 H-loop/switch region; other site 1042156001319 4Fe-4S binding domain; Region: Fer4; cl02805 1042156001320 Macro domain, Unknown family 1. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases)...; Region: Macro_1; cd02906 1042156001321 putative ADP-ribose binding site [chemical binding]; other site 1042156001322 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1042156001323 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1042156001324 Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]; Region: PurM; COG0150 1042156001325 GMP synthase; Reviewed; Region: guaA; PRK00074 1042156001326 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1042156001327 AMP/PPi binding site [chemical binding]; other site 1042156001328 candidate oxyanion hole; other site 1042156001329 catalytic triad [active] 1042156001330 potential glutamine specificity residues [chemical binding]; other site 1042156001331 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 1042156001332 ATP Binding subdomain [chemical binding]; other site 1042156001333 Ligand Binding sites [chemical binding]; other site 1042156001334 Dimerization subdomain; other site 1042156001335 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1042156001336 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1042156001337 putative NAD(P) binding site [chemical binding]; other site 1042156001338 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1042156001339 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_1; cd12161 1042156001340 putative ligand binding site [chemical binding]; other site 1042156001341 putative NAD binding site [chemical binding]; other site 1042156001342 catalytic site [active] 1042156001343 nitrilase; Region: PLN02798 1042156001344 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1042156001345 putative active site [active] 1042156001346 catalytic triad [active] 1042156001347 dimer interface [polypeptide binding]; other site 1042156001348 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1042156001349 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042156001350 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042156001351 dimer interface [polypeptide binding]; other site 1042156001352 phosphorylation site [posttranslational modification] 1042156001353 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156001354 ATP binding site [chemical binding]; other site 1042156001355 Mg2+ binding site [ion binding]; other site 1042156001356 G-X-G motif; other site 1042156001357 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042156001358 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156001359 active site 1042156001360 phosphorylation site [posttranslational modification] 1042156001361 intermolecular recognition site; other site 1042156001362 dimerization interface [polypeptide binding]; other site 1042156001363 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 1042156001364 DNA binding site [nucleotide binding] 1042156001365 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1042156001366 synthetase active site [active] 1042156001367 NTP binding site [chemical binding]; other site 1042156001368 metal binding site [ion binding]; metal-binding site 1042156001369 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 1042156001370 dimer interface [polypeptide binding]; other site 1042156001371 Citrate synthase; Region: Citrate_synt; pfam00285 1042156001372 active site 1042156001373 citrylCoA binding site [chemical binding]; other site 1042156001374 oxalacetate/citrate binding site [chemical binding]; other site 1042156001375 coenzyme A binding site [chemical binding]; other site 1042156001376 catalytic triad [active] 1042156001377 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1042156001378 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1042156001379 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1042156001380 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1042156001381 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1042156001382 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1042156001383 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1042156001384 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1042156001385 active site 1042156001386 substrate binding site [chemical binding]; other site 1042156001387 cosubstrate binding site; other site 1042156001388 catalytic site [active] 1042156001389 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1042156001390 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 1042156001391 dimerization interface [polypeptide binding]; other site 1042156001392 putative ATP binding site [chemical binding]; other site 1042156001393 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1042156001394 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1042156001395 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 1042156001396 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042156001397 active site 1042156001398 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 1042156001399 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1042156001400 heterodimer interface [polypeptide binding]; other site 1042156001401 active site 1042156001402 FMN binding site [chemical binding]; other site 1042156001403 homodimer interface [polypeptide binding]; other site 1042156001404 substrate binding site [chemical binding]; other site 1042156001405 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1042156001406 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 1042156001407 FAD binding pocket [chemical binding]; other site 1042156001408 FAD binding motif [chemical binding]; other site 1042156001409 phosphate binding motif [ion binding]; other site 1042156001410 beta-alpha-beta structure motif; other site 1042156001411 NAD binding pocket [chemical binding]; other site 1042156001412 Iron coordination center [ion binding]; other site 1042156001413 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 1042156001414 active site 1042156001415 dimer interface [polypeptide binding]; other site 1042156001416 dihydroorotase; Validated; Region: pyrC; PRK09357 1042156001417 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042156001418 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 1042156001419 active site 1042156001420 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 1042156001421 ATP cone domain; Region: ATP-cone; pfam03477 1042156001422 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1042156001423 MARCKS family; Region: MARCKS; pfam02063 1042156001424 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042156001425 binding surface 1042156001426 TPR motif; other site 1042156001427 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1042156001428 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042156001429 binding surface 1042156001430 TPR motif; other site 1042156001431 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1042156001432 binding surface 1042156001433 TPR motif; other site 1042156001434 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1042156001435 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1042156001436 homotetramer interface [polypeptide binding]; other site 1042156001437 ligand binding site [chemical binding]; other site 1042156001438 catalytic site [active] 1042156001439 NAD binding site [chemical binding]; other site 1042156001440 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1042156001441 synthetase active site [active] 1042156001442 NTP binding site [chemical binding]; other site 1042156001443 metal binding site [ion binding]; metal-binding site 1042156001444 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1042156001445 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1042156001446 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1042156001447 6-phosphofructokinase; Provisional; Region: PRK03202 1042156001448 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1042156001449 active site 1042156001450 ADP/pyrophosphate binding site [chemical binding]; other site 1042156001451 dimerization interface [polypeptide binding]; other site 1042156001452 allosteric effector site; other site 1042156001453 fructose-1,6-bisphosphate binding site; other site 1042156001454 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 1042156001455 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1042156001456 active site 1042156001457 PHP Thumb interface [polypeptide binding]; other site 1042156001458 metal binding site [ion binding]; metal-binding site 1042156001459 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1042156001460 generic binding surface II; other site 1042156001461 generic binding surface I; other site 1042156001462 CAAX protease self-immunity; Region: Abi; pfam02517 1042156001463 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1042156001464 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1042156001465 homodimer interface [polypeptide binding]; other site 1042156001466 active site pocket [active] 1042156001467 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1042156001468 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1042156001469 HIGH motif; other site 1042156001470 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1042156001471 active site 1042156001472 KMSKS motif; other site 1042156001473 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1042156001474 tRNA binding surface [nucleotide binding]; other site 1042156001475 anticodon binding site; other site 1042156001476 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042156001477 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042156001478 Walker A/P-loop; other site 1042156001479 ATP binding site [chemical binding]; other site 1042156001480 Q-loop/lid; other site 1042156001481 ABC transporter signature motif; other site 1042156001482 Walker B; other site 1042156001483 D-loop; other site 1042156001484 H-loop/switch region; other site 1042156001485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042156001486 dimer interface [polypeptide binding]; other site 1042156001487 conserved gate region; other site 1042156001488 putative PBP binding loops; other site 1042156001489 ABC-ATPase subunit interface; other site 1042156001490 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042156001491 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042156001492 substrate binding pocket [chemical binding]; other site 1042156001493 membrane-bound complex binding site; other site 1042156001494 hinge residues; other site 1042156001495 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1042156001496 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 1042156001497 active site 1042156001498 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1042156001499 active site 1042156001500 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1042156001501 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1042156001502 minor groove reading motif; other site 1042156001503 helix-hairpin-helix signature motif; other site 1042156001504 substrate binding pocket [chemical binding]; other site 1042156001505 active site 1042156001506 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 1042156001507 DNA binding and oxoG recognition site [nucleotide binding] 1042156001508 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 1042156001509 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042156001510 substrate binding site [chemical binding]; other site 1042156001511 oxyanion hole (OAH) forming residues; other site 1042156001512 trimer interface [polypeptide binding]; other site 1042156001513 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1042156001514 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1042156001515 Predicted permeases [General function prediction only]; Region: COG0679 1042156001516 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1042156001517 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1042156001518 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1042156001519 asparagine synthetase AsnA; Provisional; Region: PRK05425 1042156001520 motif 1; other site 1042156001521 dimer interface [polypeptide binding]; other site 1042156001522 active site 1042156001523 motif 2; other site 1042156001524 motif 3; other site 1042156001525 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1042156001526 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156001527 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156001528 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156001529 dimerization interface [polypeptide binding]; other site 1042156001530 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1042156001531 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1042156001532 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 1042156001533 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1042156001534 Ligand binding site [chemical binding]; other site 1042156001535 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1042156001536 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1042156001537 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1042156001538 Ligand Binding Site [chemical binding]; other site 1042156001539 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1042156001540 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 1042156001541 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1042156001542 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1042156001543 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1042156001544 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1042156001545 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1042156001546 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1042156001547 dimer interface [polypeptide binding]; other site 1042156001548 active site 1042156001549 catalytic residue [active] 1042156001550 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1042156001551 Walker A motif; other site 1042156001552 ATP binding site [chemical binding]; other site 1042156001553 Walker B motif; other site 1042156001554 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1042156001555 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1042156001556 G1 box; other site 1042156001557 putative GEF interaction site [polypeptide binding]; other site 1042156001558 GTP/Mg2+ binding site [chemical binding]; other site 1042156001559 Switch I region; other site 1042156001560 G2 box; other site 1042156001561 G3 box; other site 1042156001562 Switch II region; other site 1042156001563 G4 box; other site 1042156001564 G5 box; other site 1042156001565 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 1042156001566 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 1042156001567 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 1042156001568 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042156001569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156001570 homodimer interface [polypeptide binding]; other site 1042156001571 catalytic residue [active] 1042156001572 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 1042156001573 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1042156001574 active site 1042156001575 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1042156001576 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1042156001577 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 1042156001578 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1042156001579 active site 1042156001580 Cupin domain; Region: Cupin_2; pfam07883 1042156001581 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156001582 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042156001583 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156001584 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1042156001585 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 1042156001586 transmembrane helices; other site 1042156001587 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1042156001588 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042156001589 TM-ABC transporter signature motif; other site 1042156001590 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042156001591 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1042156001592 TM-ABC transporter signature motif; other site 1042156001593 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042156001594 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042156001595 Walker A/P-loop; other site 1042156001596 ATP binding site [chemical binding]; other site 1042156001597 Q-loop/lid; other site 1042156001598 ABC transporter signature motif; other site 1042156001599 Walker B; other site 1042156001600 D-loop; other site 1042156001601 H-loop/switch region; other site 1042156001602 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1042156001603 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042156001604 Walker A/P-loop; other site 1042156001605 ATP binding site [chemical binding]; other site 1042156001606 Q-loop/lid; other site 1042156001607 ABC transporter signature motif; other site 1042156001608 Walker B; other site 1042156001609 D-loop; other site 1042156001610 H-loop/switch region; other site 1042156001611 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042156001612 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1042156001613 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042156001614 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042156001615 DNA-binding site [nucleotide binding]; DNA binding site 1042156001616 FCD domain; Region: FCD; pfam07729 1042156001617 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1042156001618 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042156001619 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1042156001620 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042156001621 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1042156001622 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1042156001623 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1042156001624 molybdopterin cofactor binding site; other site 1042156001625 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1042156001626 molybdopterin cofactor binding site; other site 1042156001627 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1042156001628 Na binding site [ion binding]; other site 1042156001629 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156001630 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156001631 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042156001632 dimerization interface [polypeptide binding]; other site 1042156001633 MOSC domain; Region: MOSC; pfam03473 1042156001634 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1042156001635 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156001636 FeS/SAM binding site; other site 1042156001637 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1042156001638 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 1042156001639 MPT binding site; other site 1042156001640 trimer interface [polypeptide binding]; other site 1042156001641 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 1042156001642 putative MPT binding site; other site 1042156001643 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 1042156001644 trimer interface [polypeptide binding]; other site 1042156001645 dimer interface [polypeptide binding]; other site 1042156001646 putative active site [active] 1042156001647 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1042156001648 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1042156001649 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042156001650 Walker A/P-loop; other site 1042156001651 ATP binding site [chemical binding]; other site 1042156001652 Q-loop/lid; other site 1042156001653 ABC transporter signature motif; other site 1042156001654 Walker B; other site 1042156001655 D-loop; other site 1042156001656 H-loop/switch region; other site 1042156001657 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1042156001658 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042156001659 dimer interface [polypeptide binding]; other site 1042156001660 conserved gate region; other site 1042156001661 putative PBP binding loops; other site 1042156001662 ABC-ATPase subunit interface; other site 1042156001663 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1042156001664 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042156001665 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1042156001666 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1042156001667 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1042156001668 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 1042156001669 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1042156001670 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 1042156001671 DNA binding residues [nucleotide binding] 1042156001672 dimer interface [polypeptide binding]; other site 1042156001673 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 1042156001674 Flavoprotein; Region: Flavoprotein; pfam02441 1042156001675 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1042156001676 active site 1042156001677 catalytic triad [active] 1042156001678 oxyanion hole [active] 1042156001679 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1042156001680 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 1042156001681 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1042156001682 active site 1042156001683 catalytic triad [active] 1042156001684 oxyanion hole [active] 1042156001685 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1042156001686 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156001687 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156001688 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156001689 dimerization interface [polypeptide binding]; other site 1042156001690 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 1042156001691 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1042156001692 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1042156001693 FMN-binding domain; Region: FMN_bind; cl01081 1042156001694 FMN-binding domain; Region: FMN_bind; cl01081 1042156001695 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1042156001696 ApbE family; Region: ApbE; pfam02424 1042156001697 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156001698 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156001699 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1042156001700 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042156001701 NAD(P) binding site [chemical binding]; other site 1042156001702 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1042156001703 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1042156001704 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156001705 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156001706 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156001707 dimerization interface [polypeptide binding]; other site 1042156001708 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1042156001709 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1042156001710 active site 1042156001711 metal binding site [ion binding]; metal-binding site 1042156001712 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1042156001713 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 1042156001714 putative [4Fe-4S] binding site [ion binding]; other site 1042156001715 putative molybdopterin cofactor binding site [chemical binding]; other site 1042156001716 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1042156001717 molybdopterin cofactor binding site; other site 1042156001718 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1042156001719 Membrane transport protein; Region: Mem_trans; cl09117 1042156001720 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1042156001721 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1042156001722 dimer interface [polypeptide binding]; other site 1042156001723 active site 1042156001724 metal binding site [ion binding]; metal-binding site 1042156001725 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042156001726 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042156001727 NAD(P) binding site [chemical binding]; other site 1042156001728 catalytic residues [active] 1042156001729 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1042156001730 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042156001731 dimer interface [polypeptide binding]; other site 1042156001732 conserved gate region; other site 1042156001733 putative PBP binding loops; other site 1042156001734 ABC-ATPase subunit interface; other site 1042156001735 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1042156001736 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042156001737 dimer interface [polypeptide binding]; other site 1042156001738 conserved gate region; other site 1042156001739 putative PBP binding loops; other site 1042156001740 ABC-ATPase subunit interface; other site 1042156001741 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1042156001742 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042156001743 Walker A/P-loop; other site 1042156001744 ATP binding site [chemical binding]; other site 1042156001745 Q-loop/lid; other site 1042156001746 ABC transporter signature motif; other site 1042156001747 Walker B; other site 1042156001748 D-loop; other site 1042156001749 H-loop/switch region; other site 1042156001750 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1042156001751 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1042156001752 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042156001753 Walker A/P-loop; other site 1042156001754 ATP binding site [chemical binding]; other site 1042156001755 Q-loop/lid; other site 1042156001756 ABC transporter signature motif; other site 1042156001757 Walker B; other site 1042156001758 D-loop; other site 1042156001759 H-loop/switch region; other site 1042156001760 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1042156001761 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1042156001762 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 1042156001763 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 1042156001764 Uncharacterized family 1; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_1; cd10158 1042156001765 putative homodimer interface [polypeptide binding]; other site 1042156001766 putative homotetramer interface [polypeptide binding]; other site 1042156001767 putative metal binding site [ion binding]; other site 1042156001768 putative homodimer-homodimer interface [polypeptide binding]; other site 1042156001769 putative allosteric switch controlling residues; other site 1042156001770 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 1042156001771 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 1042156001772 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1042156001773 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 1042156001774 active site 1042156001775 catalytic site [active] 1042156001776 5'-nucleotidase; Provisional; Region: PRK03826 1042156001777 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1042156001778 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042156001779 motif II; other site 1042156001780 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1042156001781 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1042156001782 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1042156001783 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042156001784 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1042156001785 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1042156001786 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1042156001787 Na binding site [ion binding]; other site 1042156001788 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1042156001789 AMP-binding enzyme; Region: AMP-binding; pfam00501 1042156001790 acyl-activating enzyme (AAE) consensus motif; other site 1042156001791 AMP binding site [chemical binding]; other site 1042156001792 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1042156001793 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1042156001794 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 1042156001795 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cl00018 1042156001796 non-heme iron binding site [ion binding]; other site 1042156001797 dimer interface [polypeptide binding]; other site 1042156001798 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 1042156001799 non-heme iron binding site [ion binding]; other site 1042156001800 maltose O-acetyltransferase; Provisional; Region: PRK10092 1042156001801 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1042156001802 active site 1042156001803 substrate binding site [chemical binding]; other site 1042156001804 trimer interface [polypeptide binding]; other site 1042156001805 CoA binding site [chemical binding]; other site 1042156001806 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 1042156001807 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042156001808 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1042156001809 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 1042156001810 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042156001811 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042156001812 ligand binding site [chemical binding]; other site 1042156001813 flexible hinge region; other site 1042156001814 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1042156001815 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1042156001816 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 1042156001817 23S rRNA interface [nucleotide binding]; other site 1042156001818 L3 interface [polypeptide binding]; other site 1042156001819 DNA polymerase IV; Reviewed; Region: PRK03103 1042156001820 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1042156001821 active site 1042156001822 DNA binding site [nucleotide binding] 1042156001823 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1042156001824 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1042156001825 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1042156001826 dimerization interface 3.5A [polypeptide binding]; other site 1042156001827 active site 1042156001828 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1042156001829 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 1042156001830 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1042156001831 Walker A/P-loop; other site 1042156001832 ATP binding site [chemical binding]; other site 1042156001833 Q-loop/lid; other site 1042156001834 ABC transporter signature motif; other site 1042156001835 Walker B; other site 1042156001836 D-loop; other site 1042156001837 H-loop/switch region; other site 1042156001838 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 1042156001839 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1042156001840 Walker A/P-loop; other site 1042156001841 ATP binding site [chemical binding]; other site 1042156001842 Q-loop/lid; other site 1042156001843 ABC transporter signature motif; other site 1042156001844 Walker B; other site 1042156001845 D-loop; other site 1042156001846 H-loop/switch region; other site 1042156001847 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1042156001848 hypothetical protein; Validated; Region: PRK07682 1042156001849 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042156001850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156001851 homodimer interface [polypeptide binding]; other site 1042156001852 catalytic residue [active] 1042156001853 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042156001854 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 1042156001855 AsnC family; Region: AsnC_trans_reg; pfam01037 1042156001856 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 1042156001857 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 1042156001858 dimerization interface [polypeptide binding]; other site 1042156001859 putative ATP binding site [chemical binding]; other site 1042156001860 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1042156001861 VanW like protein; Region: VanW; pfam04294 1042156001862 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1042156001863 active site 1042156001864 catalytic site [active] 1042156001865 substrate binding site [chemical binding]; other site 1042156001866 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1042156001867 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156001868 Walker A motif; other site 1042156001869 ATP binding site [chemical binding]; other site 1042156001870 Walker B motif; other site 1042156001871 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042156001872 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042156001873 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042156001874 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042156001875 ligand binding site [chemical binding]; other site 1042156001876 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1042156001877 putative switch regulator; other site 1042156001878 non-specific DNA interactions [nucleotide binding]; other site 1042156001879 DNA binding site [nucleotide binding] 1042156001880 sequence specific DNA binding site [nucleotide binding]; other site 1042156001881 putative cAMP binding site [chemical binding]; other site 1042156001882 Alpha amylase catalytic domain found in eukaryotic and bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_euk_bac_CMD_like; cd11353 1042156001883 active site 1042156001884 catalytic site [active] 1042156001885 Uncharacterized conserved protein [Function unknown]; Region: COG4198 1042156001886 EamA-like transporter family; Region: EamA; pfam00892 1042156001887 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1042156001888 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1042156001889 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 1042156001890 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1042156001891 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 1042156001892 B12 binding site [chemical binding]; other site 1042156001893 cobalt ligand [ion binding]; other site 1042156001894 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 1042156001895 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 1042156001896 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156001897 FeS/SAM binding site; other site 1042156001898 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 1042156001899 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042156001900 NAD(P) binding site [chemical binding]; other site 1042156001901 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042156001902 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 1042156001903 active site 2 [active] 1042156001904 active site 1 [active] 1042156001905 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1042156001906 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042156001907 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042156001908 Walker A/P-loop; other site 1042156001909 ATP binding site [chemical binding]; other site 1042156001910 Q-loop/lid; other site 1042156001911 ABC transporter signature motif; other site 1042156001912 Walker B; other site 1042156001913 D-loop; other site 1042156001914 H-loop/switch region; other site 1042156001915 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042156001916 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042156001917 EamA-like transporter family; Region: EamA; pfam00892 1042156001918 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 1042156001919 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156001920 FeS/SAM binding site; other site 1042156001921 DNA polymerase IV; Reviewed; Region: PRK03103 1042156001922 Y-family of DNA polymerases; Region: PolY; cl12025 1042156001923 active site 1042156001924 DNA binding site [nucleotide binding] 1042156001925 Predicted membrane protein [Function unknown]; Region: COG1971 1042156001926 Domain of unknown function DUF; Region: DUF204; pfam02659 1042156001927 Domain of unknown function DUF; Region: DUF204; pfam02659 1042156001928 NTPase; Region: NTPase_1; cl17478 1042156001929 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 1042156001930 active site 1042156001931 Ap6A binding site [chemical binding]; other site 1042156001932 nudix motif; other site 1042156001933 metal binding site [ion binding]; metal-binding site 1042156001934 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1042156001935 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156001936 S-adenosylmethionine binding site [chemical binding]; other site 1042156001937 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1042156001938 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1042156001939 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1042156001940 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156001941 Walker A motif; other site 1042156001942 ATP binding site [chemical binding]; other site 1042156001943 Walker B motif; other site 1042156001944 arginine finger; other site 1042156001945 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1042156001946 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1042156001947 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1042156001948 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1042156001949 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042156001950 Walker A/P-loop; other site 1042156001951 ATP binding site [chemical binding]; other site 1042156001952 Q-loop/lid; other site 1042156001953 ABC transporter signature motif; other site 1042156001954 Walker B; other site 1042156001955 D-loop; other site 1042156001956 H-loop/switch region; other site 1042156001957 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1042156001958 FtsX-like permease family; Region: FtsX; pfam02687 1042156001959 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 1042156001960 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042156001961 catalytic loop [active] 1042156001962 iron binding site [ion binding]; other site 1042156001963 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1042156001964 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1042156001965 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1042156001966 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1042156001967 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1042156001968 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 1042156001969 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042156001970 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 1042156001971 active site 1042156001972 substrate binding pocket [chemical binding]; other site 1042156001973 homodimer interaction site [polypeptide binding]; other site 1042156001974 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1042156001975 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156001976 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042156001977 putative substrate translocation pore; other site 1042156001978 Cupin domain; Region: Cupin_2; cl17218 1042156001979 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 1042156001980 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042156001981 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042156001982 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042156001983 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1042156001984 dimer interface [polypeptide binding]; other site 1042156001985 active site 1042156001986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156001987 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156001988 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042156001989 dimerization interface [polypeptide binding]; other site 1042156001990 substrate binding pocket [chemical binding]; other site 1042156001991 hypothetical protein; Validated; Region: PRK07121 1042156001992 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1042156001993 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1042156001994 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042156001995 catalytic loop [active] 1042156001996 iron binding site [ion binding]; other site 1042156001997 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1042156001998 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 1042156001999 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042156002000 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042156002001 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042156002002 Coenzyme A transferase; Region: CoA_trans; cl17247 1042156002003 Coenzyme A transferase; Region: CoA_trans; cl17247 1042156002004 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1042156002005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042156002006 NAD(P) binding site [chemical binding]; other site 1042156002007 active site 1042156002008 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042156002009 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042156002010 substrate binding site [chemical binding]; other site 1042156002011 oxyanion hole (OAH) forming residues; other site 1042156002012 trimer interface [polypeptide binding]; other site 1042156002013 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1042156002014 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042156002015 substrate binding site [chemical binding]; other site 1042156002016 oxyanion hole (OAH) forming residues; other site 1042156002017 trimer interface [polypeptide binding]; other site 1042156002018 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042156002019 classical (c) SDRs; Region: SDR_c; cd05233 1042156002020 NAD(P) binding site [chemical binding]; other site 1042156002021 active site 1042156002022 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042156002023 DNA polymerase III subunit epsilon; Validated; Region: PRK06807 1042156002024 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1042156002025 active site 1042156002026 catalytic site [active] 1042156002027 substrate binding site [chemical binding]; other site 1042156002028 Intron encoded nuclease repeat motif; Region: IENR1; smart00497 1042156002029 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1042156002030 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1042156002031 catalytic residues [active] 1042156002032 catalytic nucleophile [active] 1042156002033 Recombinase; Region: Recombinase; pfam07508 1042156002034 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1042156002035 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1042156002036 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1042156002037 catalytic residues [active] 1042156002038 catalytic nucleophile [active] 1042156002039 Recombinase; Region: Recombinase; pfam07508 1042156002040 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1042156002041 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1042156002042 RNA polymerase sigma factor; Provisional; Region: PRK11924 1042156002043 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1042156002044 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1042156002045 active site 1042156002046 CHAP domain; Region: CHAP; cl17642 1042156002047 Cpl-7 lysozyme C-terminal domain; Region: Cpl-7; pfam08230 1042156002048 Holin family; Region: Phage_holin_4; pfam05105 1042156002049 baseplate wedge subunit and tail pin; Provisional; Region: 10; PHA02582 1042156002050 membrane protein P6; Region: PHA01399 1042156002051 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1042156002052 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1042156002053 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1042156002054 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1042156002055 DNA binding residues [nucleotide binding] 1042156002056 putative dimer interface [polypeptide binding]; other site 1042156002057 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1042156002058 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1042156002059 Cupin domain; Region: Cupin_2; pfam07883 1042156002060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156002061 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042156002062 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156002063 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1042156002064 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042156002065 dimer interface [polypeptide binding]; other site 1042156002066 active site 1042156002067 metal binding site [ion binding]; metal-binding site 1042156002068 glutathione binding site [chemical binding]; other site 1042156002069 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042156002070 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042156002071 ligand binding site [chemical binding]; other site 1042156002072 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 1042156002073 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042156002074 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042156002075 active site 1042156002076 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1042156002077 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1042156002078 Rubredoxin [Energy production and conversion]; Region: COG1773 1042156002079 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1042156002080 iron binding site [ion binding]; other site 1042156002081 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1042156002082 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042156002083 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1042156002084 chaperone protein DnaJ; Provisional; Region: PRK14299 1042156002085 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1042156002086 HSP70 interaction site [polypeptide binding]; other site 1042156002087 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1042156002088 substrate binding site [polypeptide binding]; other site 1042156002089 dimer interface [polypeptide binding]; other site 1042156002090 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042156002091 EamA-like transporter family; Region: EamA; pfam00892 1042156002092 EamA-like transporter family; Region: EamA; pfam00892 1042156002093 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1042156002094 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 1042156002095 active site 1042156002096 substrate-binding site [chemical binding]; other site 1042156002097 metal-binding site [ion binding] 1042156002098 ATP binding site [chemical binding]; other site 1042156002099 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1042156002100 glycerol kinase; Provisional; Region: glpK; PRK00047 1042156002101 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1042156002102 N- and C-terminal domain interface [polypeptide binding]; other site 1042156002103 active site 1042156002104 MgATP binding site [chemical binding]; other site 1042156002105 catalytic site [active] 1042156002106 metal binding site [ion binding]; metal-binding site 1042156002107 glycerol binding site [chemical binding]; other site 1042156002108 homotetramer interface [polypeptide binding]; other site 1042156002109 homodimer interface [polypeptide binding]; other site 1042156002110 FBP binding site [chemical binding]; other site 1042156002111 protein IIAGlc interface [polypeptide binding]; other site 1042156002112 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1042156002113 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 1042156002114 dimer interface [polypeptide binding]; other site 1042156002115 FMN binding site [chemical binding]; other site 1042156002116 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1042156002117 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 1042156002118 EamA-like transporter family; Region: EamA; pfam00892 1042156002119 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156002120 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156002121 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1042156002122 dimerization interface [polypeptide binding]; other site 1042156002123 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1042156002124 substrate binding site [chemical binding]; other site 1042156002125 THF binding site; other site 1042156002126 zinc-binding site [ion binding]; other site 1042156002127 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1042156002128 RelB antitoxin; Region: RelB; cl01171 1042156002129 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1042156002130 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 1042156002131 catalytic nucleophile [active] 1042156002132 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 1042156002133 Uncharacterized conserved protein [Function unknown]; Region: COG2461 1042156002134 Family of unknown function (DUF438); Region: DUF438; pfam04282 1042156002135 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1042156002136 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1042156002137 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156002138 S-adenosylmethionine binding site [chemical binding]; other site 1042156002139 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1042156002140 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1042156002141 dimer interface [polypeptide binding]; other site 1042156002142 putative anticodon binding site; other site 1042156002143 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1042156002144 motif 1; other site 1042156002145 active site 1042156002146 motif 2; other site 1042156002147 motif 3; other site 1042156002148 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 1042156002149 putative tRNA-binding site [nucleotide binding]; other site 1042156002150 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1042156002151 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1042156002152 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1042156002153 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1042156002154 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1042156002155 FMN binding site [chemical binding]; other site 1042156002156 active site 1042156002157 catalytic residues [active] 1042156002158 substrate binding site [chemical binding]; other site 1042156002159 pantothenate kinase; Reviewed; Region: PRK13318 1042156002160 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1042156002161 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042156002162 DNA-binding site [nucleotide binding]; DNA binding site 1042156002163 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1042156002164 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1042156002165 ornithine carbamoyltransferase; Validated; Region: PRK02102 1042156002166 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1042156002167 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1042156002168 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1042156002169 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1042156002170 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1042156002171 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1042156002172 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1042156002173 active site 1042156002174 dimer interface [polypeptide binding]; other site 1042156002175 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1042156002176 dimer interface [polypeptide binding]; other site 1042156002177 active site 1042156002178 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 1042156002179 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 1042156002180 active site 1042156002181 homodimer interface [polypeptide binding]; other site 1042156002182 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 1042156002183 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1042156002184 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 1042156002185 FAD binding site [chemical binding]; other site 1042156002186 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 1042156002187 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156002188 FeS/SAM binding site; other site 1042156002189 hypothetical protein; Provisional; Region: PRK03881 1042156002190 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 1042156002191 AMMECR1; Region: AMMECR1; pfam01871 1042156002192 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 1042156002193 HIT family signature motif; other site 1042156002194 catalytic residue [active] 1042156002195 Rhomboid family; Region: Rhomboid; pfam01694 1042156002196 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1042156002197 phosphopeptide binding site; other site 1042156002198 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1042156002199 TadE-like protein; Region: TadE; pfam07811 1042156002200 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1042156002201 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1042156002202 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1042156002203 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1042156002204 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042156002205 MULE transposase domain; Region: MULE; pfam10551 1042156002206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042156002207 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1042156002208 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1042156002209 catalytic residues [active] 1042156002210 catalytic nucleophile [active] 1042156002211 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 1042156002212 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1042156002213 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1042156002214 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156002215 non-specific DNA binding site [nucleotide binding]; other site 1042156002216 salt bridge; other site 1042156002217 sequence-specific DNA binding site [nucleotide binding]; other site 1042156002218 Helix-turn-helix domain; Region: HTH_17; pfam12728 1042156002219 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1042156002220 Resolvase, N terminal domain; Region: Resolvase; smart00857 1042156002221 catalytic residues [active] 1042156002222 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1042156002223 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1042156002224 catalytic residues [active] 1042156002225 catalytic nucleophile [active] 1042156002226 Recombinase; Region: Recombinase; pfam07508 1042156002227 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 1042156002228 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042156002229 active site 1042156002230 DNA binding site [nucleotide binding] 1042156002231 Int/Topo IB signature motif; other site 1042156002232 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 1042156002233 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1042156002234 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1042156002235 active site 1042156002236 catalytic residues [active] 1042156002237 DNA binding site [nucleotide binding] 1042156002238 Int/Topo IB signature motif; other site 1042156002239 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1042156002240 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042156002241 active site 1042156002242 Int/Topo IB signature motif; other site 1042156002243 DNA binding site [nucleotide binding] 1042156002244 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156002245 sequence-specific DNA binding site [nucleotide binding]; other site 1042156002246 salt bridge; other site 1042156002247 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1042156002248 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1042156002249 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1042156002250 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1042156002251 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 1042156002252 Walker A/P-loop; other site 1042156002253 ATP binding site [chemical binding]; other site 1042156002254 Q-loop/lid; other site 1042156002255 ABC transporter signature motif; other site 1042156002256 Walker B; other site 1042156002257 D-loop; other site 1042156002258 H-loop/switch region; other site 1042156002259 Putative transposase; Region: Y2_Tnp; pfam04986 1042156002260 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1042156002261 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042156002262 active site 1042156002263 DNA binding site [nucleotide binding] 1042156002264 Int/Topo IB signature motif; other site 1042156002265 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042156002266 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156002267 non-specific DNA binding site [nucleotide binding]; other site 1042156002268 salt bridge; other site 1042156002269 sequence-specific DNA binding site [nucleotide binding]; other site 1042156002270 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1042156002271 active site 1042156002272 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1042156002273 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042156002274 active site 1042156002275 DNA binding site [nucleotide binding] 1042156002276 Int/Topo IB signature motif; other site 1042156002277 Putative transposase; Region: Y2_Tnp; pfam04986 1042156002278 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1042156002279 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042156002280 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156002281 non-specific DNA binding site [nucleotide binding]; other site 1042156002282 salt bridge; other site 1042156002283 sequence-specific DNA binding site [nucleotide binding]; other site 1042156002284 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042156002285 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156002286 non-specific DNA binding site [nucleotide binding]; other site 1042156002287 salt bridge; other site 1042156002288 sequence-specific DNA binding site [nucleotide binding]; other site 1042156002289 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1042156002290 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1042156002291 catalytic residues [active] 1042156002292 catalytic nucleophile [active] 1042156002293 Recombinase; Region: Recombinase; pfam07508 1042156002294 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1042156002295 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1042156002296 ATP binding site [chemical binding]; other site 1042156002297 Walker A motif; other site 1042156002298 hexamer interface [polypeptide binding]; other site 1042156002299 Walker B motif; other site 1042156002300 AAA domain; Region: AAA_31; pfam13614 1042156002301 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1042156002302 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1042156002303 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 1042156002304 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1042156002305 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1042156002306 Walker A/P-loop; other site 1042156002307 ATP binding site [chemical binding]; other site 1042156002308 Q-loop/lid; other site 1042156002309 ABC transporter signature motif; other site 1042156002310 Walker B; other site 1042156002311 D-loop; other site 1042156002312 H-loop/switch region; other site 1042156002313 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1042156002314 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1042156002315 ABC-ATPase subunit interface; other site 1042156002316 dimer interface [polypeptide binding]; other site 1042156002317 putative PBP binding regions; other site 1042156002318 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1042156002319 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1042156002320 intersubunit interface [polypeptide binding]; other site 1042156002321 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 1042156002322 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 1042156002323 active site 1042156002324 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 1042156002325 active site 1042156002326 N-terminal domain interface [polypeptide binding]; other site 1042156002327 T surface-antigen of pili; Region: FctA; cl16948 1042156002328 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1042156002329 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 1042156002330 dimer interface [polypeptide binding]; other site 1042156002331 anticodon binding site; other site 1042156002332 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1042156002333 homodimer interface [polypeptide binding]; other site 1042156002334 motif 1; other site 1042156002335 active site 1042156002336 motif 2; other site 1042156002337 GAD domain; Region: GAD; pfam02938 1042156002338 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1042156002339 active site 1042156002340 motif 3; other site 1042156002341 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 1042156002342 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1042156002343 dimer interface [polypeptide binding]; other site 1042156002344 motif 1; other site 1042156002345 active site 1042156002346 motif 2; other site 1042156002347 motif 3; other site 1042156002348 coproporphyrinogen dehydrogenase HemZ; Region: rSAM_HemZ; TIGR03994 1042156002349 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156002350 FeS/SAM binding site; other site 1042156002351 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042156002352 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1042156002353 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042156002354 Zn2+ binding site [ion binding]; other site 1042156002355 Mg2+ binding site [ion binding]; other site 1042156002356 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1042156002357 synthetase active site [active] 1042156002358 NTP binding site [chemical binding]; other site 1042156002359 metal binding site [ion binding]; metal-binding site 1042156002360 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 1042156002361 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1042156002362 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1042156002363 active site 1042156002364 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1042156002365 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1042156002366 active site 1042156002367 glycogen branching enzyme; Provisional; Region: PRK12313 1042156002368 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1042156002369 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1042156002370 active site 1042156002371 catalytic site [active] 1042156002372 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1042156002373 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1042156002374 AAA domain; Region: AAA_22; pfam13401 1042156002375 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1042156002376 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1042156002377 putative hydratase; Provisional; Region: PRK11413 1042156002378 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1042156002379 substrate binding site [chemical binding]; other site 1042156002380 ligand binding site [chemical binding]; other site 1042156002381 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1042156002382 substrate binding site [chemical binding]; other site 1042156002383 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 1042156002384 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1042156002385 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042156002386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156002387 homodimer interface [polypeptide binding]; other site 1042156002388 catalytic residue [active] 1042156002389 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1042156002390 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 1042156002391 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1042156002392 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 1042156002393 Protein of unknown function, DUF393; Region: DUF393; cl01136 1042156002394 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1042156002395 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 1042156002396 catalytic motif [active] 1042156002397 Zn binding site [ion binding]; other site 1042156002398 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1042156002399 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1042156002400 active site 1042156002401 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1042156002402 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1042156002403 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 1042156002404 Bacterial SH3 domain; Region: SH3_4; pfam06347 1042156002405 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 1042156002406 active site 1042156002407 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 1042156002408 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1042156002409 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042156002410 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 1042156002411 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1042156002412 active site 1042156002413 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1042156002414 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042156002415 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1042156002416 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1042156002417 Walker A/P-loop; other site 1042156002418 ATP binding site [chemical binding]; other site 1042156002419 Q-loop/lid; other site 1042156002420 ABC transporter signature motif; other site 1042156002421 Walker B; other site 1042156002422 D-loop; other site 1042156002423 H-loop/switch region; other site 1042156002424 Predicted transcriptional regulators [Transcription]; Region: COG1725 1042156002425 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042156002426 DNA-binding site [nucleotide binding]; DNA binding site 1042156002427 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1042156002428 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1042156002429 transmembrane helices; other site 1042156002430 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1042156002431 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1042156002432 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1042156002433 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1042156002434 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1042156002435 YARHG domain; Region: YARHG; pfam13308 1042156002436 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1042156002437 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1042156002438 5S rRNA interface [nucleotide binding]; other site 1042156002439 CTC domain interface [polypeptide binding]; other site 1042156002440 L16 interface [polypeptide binding]; other site 1042156002441 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042156002442 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1042156002443 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042156002444 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042156002445 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042156002446 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 1042156002447 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1042156002448 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1042156002449 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 1042156002450 glutaminase active site [active] 1042156002451 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1042156002452 dimer interface [polypeptide binding]; other site 1042156002453 active site 1042156002454 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1042156002455 dimer interface [polypeptide binding]; other site 1042156002456 active site 1042156002457 BioY family; Region: BioY; pfam02632 1042156002458 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 1042156002459 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 1042156002460 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 1042156002461 putative active site [active] 1042156002462 Transglycosylase; Region: Transgly; pfam00912 1042156002463 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1042156002464 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1042156002465 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 1042156002466 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 1042156002467 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1042156002468 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1042156002469 aspartate aminotransferase; Provisional; Region: PRK06836 1042156002470 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042156002471 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156002472 homodimer interface [polypeptide binding]; other site 1042156002473 catalytic residue [active] 1042156002474 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1042156002475 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1042156002476 NlpC/P60 family; Region: NLPC_P60; pfam00877 1042156002477 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1042156002478 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1042156002479 putative acyl-acceptor binding pocket; other site 1042156002480 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1042156002481 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1042156002482 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042156002483 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042156002484 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1042156002485 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1042156002486 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042156002487 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1042156002488 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042156002489 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156002490 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1042156002491 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1042156002492 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1042156002493 active site 1042156002494 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 1042156002495 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156002496 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156002497 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156002498 dimerization interface [polypeptide binding]; other site 1042156002499 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1042156002500 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1042156002501 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156002502 putative substrate translocation pore; other site 1042156002503 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156002504 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156002505 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156002506 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042156002507 dimerization interface [polypeptide binding]; other site 1042156002508 Predicted membrane protein [Function unknown]; Region: COG2855 1042156002509 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1042156002510 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1042156002511 putative active site [active] 1042156002512 putative NTP binding site [chemical binding]; other site 1042156002513 putative nucleic acid binding site [nucleotide binding]; other site 1042156002514 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1042156002515 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1042156002516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1042156002517 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1042156002518 Bacteriophage peptidoglycan hydrolase; Region: Amidase_5; pfam05382 1042156002519 Bacterial SH3 domain; Region: SH3_3; pfam08239 1042156002520 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 1042156002521 DNA binding residues [nucleotide binding] 1042156002522 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 1042156002523 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1042156002524 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 1042156002525 Homoserine O-succinyltransferase; Region: HTS; pfam04204 1042156002526 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1042156002527 proposed active site lysine [active] 1042156002528 conserved cys residue [active] 1042156002529 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1042156002530 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042156002531 Coenzyme A binding pocket [chemical binding]; other site 1042156002532 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1042156002533 nudix motif; other site 1042156002534 GGGtGRT protein; Region: GGGtGRT; pfam14057 1042156002535 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1042156002536 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 1042156002537 RecX family; Region: RecX; cl00936 1042156002538 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1042156002539 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1042156002540 PYR/PP interface [polypeptide binding]; other site 1042156002541 dimer interface [polypeptide binding]; other site 1042156002542 TPP binding site [chemical binding]; other site 1042156002543 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042156002544 transketolase; Reviewed; Region: PRK05899 1042156002545 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1042156002546 TPP-binding site [chemical binding]; other site 1042156002547 dimer interface [polypeptide binding]; other site 1042156002548 recombination protein RecR; Reviewed; Region: recR; PRK00076 1042156002549 RecR protein; Region: RecR; pfam02132 1042156002550 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 1042156002551 putative active site [active] 1042156002552 putative metal-binding site [ion binding]; other site 1042156002553 tetramer interface [polypeptide binding]; other site 1042156002554 hypothetical protein; Validated; Region: PRK00153 1042156002555 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1042156002556 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156002557 Walker A motif; other site 1042156002558 ATP binding site [chemical binding]; other site 1042156002559 Walker B motif; other site 1042156002560 arginine finger; other site 1042156002561 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1042156002562 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156002563 putative substrate translocation pore; other site 1042156002564 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042156002565 TSCPD domain; Region: TSCPD; cl14834 1042156002566 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1042156002567 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042156002568 catalytic residue [active] 1042156002569 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 1042156002570 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 1042156002571 nucleoside/Zn binding site; other site 1042156002572 dimer interface [polypeptide binding]; other site 1042156002573 catalytic motif [active] 1042156002574 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1042156002575 metal binding site 2 [ion binding]; metal-binding site 1042156002576 putative DNA binding helix; other site 1042156002577 metal binding site 1 [ion binding]; metal-binding site 1042156002578 dimer interface [polypeptide binding]; other site 1042156002579 structural Zn2+ binding site [ion binding]; other site 1042156002580 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 1042156002581 Rubredoxin; Region: Rubredoxin; pfam00301 1042156002582 iron binding site [ion binding]; other site 1042156002583 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 1042156002584 Rubrerythrin [Energy production and conversion]; Region: COG1592 1042156002585 diiron binding motif [ion binding]; other site 1042156002586 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1042156002587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042156002588 Walker A/P-loop; other site 1042156002589 ATP binding site [chemical binding]; other site 1042156002590 Q-loop/lid; other site 1042156002591 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1042156002592 ABC transporter signature motif; other site 1042156002593 Walker B; other site 1042156002594 D-loop; other site 1042156002595 H-loop/switch region; other site 1042156002596 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1042156002597 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1042156002598 active site 1042156002599 metal binding site [ion binding]; metal-binding site 1042156002600 DNA binding site [nucleotide binding] 1042156002601 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1042156002602 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1042156002603 GIY-YIG motif/motif A; other site 1042156002604 putative active site [active] 1042156002605 putative metal binding site [ion binding]; other site 1042156002606 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1042156002607 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156002608 S-adenosylmethionine binding site [chemical binding]; other site 1042156002609 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1042156002610 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1042156002611 active site 1042156002612 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 1042156002613 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042156002614 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042156002615 Initiator Replication protein; Region: Rep_3; pfam01051 1042156002616 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1042156002617 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1042156002618 Bacterial SH3 domain; Region: SH3_3; cl17532 1042156002619 Bacterial SH3 domain; Region: SH3_3; pfam08239 1042156002620 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1042156002621 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1042156002622 nucleophilic elbow; other site 1042156002623 catalytic triad; other site 1042156002624 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1042156002625 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1042156002626 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1042156002627 NodB motif; other site 1042156002628 active site 1042156002629 catalytic site [active] 1042156002630 Zn binding site [ion binding]; other site 1042156002631 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042156002632 Zn2+ binding site [ion binding]; other site 1042156002633 Mg2+ binding site [ion binding]; other site 1042156002634 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1042156002635 dihydropteroate synthase; Region: DHPS; TIGR01496 1042156002636 substrate binding pocket [chemical binding]; other site 1042156002637 dimer interface [polypeptide binding]; other site 1042156002638 inhibitor binding site; inhibition site 1042156002639 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1042156002640 homooctamer interface [polypeptide binding]; other site 1042156002641 active site 1042156002642 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 1042156002643 catalytic center binding site [active] 1042156002644 ATP binding site [chemical binding]; other site 1042156002645 homoserine dehydrogenase; Provisional; Region: PRK06349 1042156002646 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1042156002647 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1042156002648 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1042156002649 Cupin domain; Region: Cupin_2; pfam07883 1042156002650 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1042156002651 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042156002652 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1042156002653 Walker A/P-loop; other site 1042156002654 ATP binding site [chemical binding]; other site 1042156002655 Q-loop/lid; other site 1042156002656 ABC transporter signature motif; other site 1042156002657 Walker B; other site 1042156002658 D-loop; other site 1042156002659 H-loop/switch region; other site 1042156002660 Fumarase C-terminus; Region: Fumerase_C; cl00795 1042156002661 fumarate hydratase; Provisional; Region: PRK06246 1042156002662 DNA gyrase subunit A; Validated; Region: PRK05560 1042156002663 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1042156002664 CAP-like domain; other site 1042156002665 active site 1042156002666 primary dimer interface [polypeptide binding]; other site 1042156002667 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042156002668 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042156002669 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042156002670 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042156002671 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042156002672 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1042156002673 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156002674 Mg2+ binding site [ion binding]; other site 1042156002675 G-X-G motif; other site 1042156002676 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1042156002677 anchoring element; other site 1042156002678 dimer interface [polypeptide binding]; other site 1042156002679 ATP binding site [chemical binding]; other site 1042156002680 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 1042156002681 active site 1042156002682 putative metal-binding site [ion binding]; other site 1042156002683 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1042156002684 recombination protein F; Reviewed; Region: recF; PRK00064 1042156002685 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1042156002686 Walker A/P-loop; other site 1042156002687 ATP binding site [chemical binding]; other site 1042156002688 Q-loop/lid; other site 1042156002689 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042156002690 ABC transporter signature motif; other site 1042156002691 Walker B; other site 1042156002692 D-loop; other site 1042156002693 H-loop/switch region; other site 1042156002694 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042156002695 RNA binding surface [nucleotide binding]; other site 1042156002696 DNA polymerase III subunit beta; Validated; Region: PRK05643 1042156002697 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 1042156002698 putative DNA binding surface [nucleotide binding]; other site 1042156002699 dimer interface [polypeptide binding]; other site 1042156002700 beta-clamp/clamp loader binding surface; other site 1042156002701 beta-clamp/translesion DNA polymerase binding surface; other site 1042156002702 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1042156002703 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1042156002704 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156002705 Walker A motif; other site 1042156002706 ATP binding site [chemical binding]; other site 1042156002707 Walker B motif; other site 1042156002708 arginine finger; other site 1042156002709 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 1042156002710 DnaA box-binding interface [nucleotide binding]; other site 1042156002711 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1042156002712 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1042156002713 Haemolytic domain; Region: Haemolytic; pfam01809 1042156002714 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 1042156002715 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1042156002716 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1042156002717 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 1042156002718 G-X-X-G motif; other site 1042156002719 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 1042156002720 RxxxH motif; other site 1042156002721 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1042156002722 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1042156002723 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1042156002724 G1 box; other site 1042156002725 GTP/Mg2+ binding site [chemical binding]; other site 1042156002726 Switch I region; other site 1042156002727 G2 box; other site 1042156002728 Switch II region; other site 1042156002729 G3 box; other site 1042156002730 G4 box; other site 1042156002731 G5 box; other site 1042156002732 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1042156002733 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1042156002734 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1042156002735 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1042156002736 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1042156002737 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1042156002738 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156002739 S-adenosylmethionine binding site [chemical binding]; other site 1042156002740 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042156002741 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1042156002742 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042156002743 P-loop; other site 1042156002744 Magnesium ion binding site [ion binding]; other site 1042156002745 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042156002746 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1042156002747 ParB-like nuclease domain; Region: ParB; smart00470 1042156002748 Domain of unknown function, E. rectale Gene description (DUF3881); Region: DUF3881; pfam12997 1042156002749 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 1042156002750 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042156002751 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1042156002752 P-loop; other site 1042156002753 Magnesium ion binding site [ion binding]; other site 1042156002754 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1042156002755 Magnesium ion binding site [ion binding]; other site 1042156002756 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1042156002757 ParB-like nuclease domain; Region: ParBc; pfam02195 1042156002758 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 1042156002759 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 1042156002760 AAA-like domain; Region: AAA_10; pfam12846 1042156002761 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 1042156002762 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042156002763 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156002764 non-specific DNA binding site [nucleotide binding]; other site 1042156002765 salt bridge; other site 1042156002766 sequence-specific DNA binding site [nucleotide binding]; other site 1042156002767 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1042156002768 Virulence-associated protein E; Region: VirE; pfam05272 1042156002769 Amidase; Region: Amidase; cl11426 1042156002770 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1042156002771 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 1042156002772 putative catalytic residues [active] 1042156002773 catalytic nucleophile [active] 1042156002774 Recombinase; Region: Recombinase; pfam07508 1042156002775 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1042156002776 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 1042156002777 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1042156002778 FtsX-like permease family; Region: FtsX; pfam02687 1042156002779 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1042156002780 FtsX-like permease family; Region: FtsX; pfam02687 1042156002781 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1042156002782 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042156002783 Walker A/P-loop; other site 1042156002784 ATP binding site [chemical binding]; other site 1042156002785 Q-loop/lid; other site 1042156002786 ABC transporter signature motif; other site 1042156002787 Walker B; other site 1042156002788 D-loop; other site 1042156002789 H-loop/switch region; other site 1042156002790 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042156002791 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042156002792 dimer interface [polypeptide binding]; other site 1042156002793 phosphorylation site [posttranslational modification] 1042156002794 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156002795 ATP binding site [chemical binding]; other site 1042156002796 Mg2+ binding site [ion binding]; other site 1042156002797 G-X-G motif; other site 1042156002798 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042156002799 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156002800 active site 1042156002801 phosphorylation site [posttranslational modification] 1042156002802 intermolecular recognition site; other site 1042156002803 dimerization interface [polypeptide binding]; other site 1042156002804 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042156002805 DNA binding site [nucleotide binding] 1042156002806 Helix-turn-helix domain; Region: HTH_17; pfam12728 1042156002807 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1042156002808 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1042156002809 DNA binding residues [nucleotide binding] 1042156002810 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1042156002811 Maff2 family; Region: Maff2; pfam12750 1042156002812 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 1042156002813 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 1042156002814 G1 box; other site 1042156002815 putative GEF interaction site [polypeptide binding]; other site 1042156002816 GTP/Mg2+ binding site [chemical binding]; other site 1042156002817 Switch I region; other site 1042156002818 G2 box; other site 1042156002819 G3 box; other site 1042156002820 Switch II region; other site 1042156002821 G4 box; other site 1042156002822 G5 box; other site 1042156002823 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 1042156002824 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 1042156002825 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 1042156002826 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1042156002827 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156002828 S-adenosylmethionine binding site [chemical binding]; other site 1042156002829 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1042156002830 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 1042156002831 DNA binding residues [nucleotide binding] 1042156002832 Helix-turn-helix domain; Region: HTH_16; pfam12645 1042156002833 T-DNA border endonuclease VirD1; Region: VirD1; cl17530 1042156002834 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1042156002835 Cysteine-rich VLP; Region: Cys_rich_VLP; pfam14194 1042156002836 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 1042156002837 hypothetical protein; Validated; Region: PRK08116 1042156002838 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156002839 Walker A motif; other site 1042156002840 ATP binding site [chemical binding]; other site 1042156002841 Walker B motif; other site 1042156002842 arginine finger; other site 1042156002843 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1042156002844 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 1042156002845 putative catalytic residues [active] 1042156002846 catalytic nucleophile [active] 1042156002847 Recombinase; Region: Recombinase; pfam07508 1042156002848 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1042156002849 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 1042156002850 PrgI family protein; Region: PrgI; pfam12666 1042156002851 AAA-like domain; Region: AAA_10; pfam12846 1042156002852 Domain of unknown function DUF87; Region: DUF87; pfam01935 1042156002853 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1042156002854 NlpC/P60 family; Region: NLPC_P60; pfam00877 1042156002855 Domain of unknown function (DUF4315); Region: DUF4315; pfam14193 1042156002856 Bacterial SH3 domain; Region: SH3_3; pfam08239 1042156002857 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 1042156002858 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1042156002859 MPN+ (JAMM) motif; other site 1042156002860 Zinc-binding site [ion binding]; other site 1042156002861 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1042156002862 Domain of unknown function (DUF955); Region: DUF955; cl01076 1042156002863 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 1042156002864 AAA domain; Region: AAA_21; pfam13304 1042156002865 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042156002866 Walker A/P-loop; other site 1042156002867 ATP binding site [chemical binding]; other site 1042156002868 RloB-like protein; Region: RloB; pfam13707 1042156002869 cyclase homology domain; Region: CHD; cd07302 1042156002870 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1042156002871 cyclase homology domain; Region: CHD; cd07302 1042156002872 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1042156002873 nucleotidyl binding site; other site 1042156002874 metal binding site [ion binding]; metal-binding site 1042156002875 dimer interface [polypeptide binding]; other site 1042156002876 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042156002877 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156002878 non-specific DNA binding site [nucleotide binding]; other site 1042156002879 salt bridge; other site 1042156002880 sequence-specific DNA binding site [nucleotide binding]; other site 1042156002881 PemK-like protein; Region: PemK; pfam02452 1042156002882 Helix-turn-helix domain; Region: HTH_17; pfam12728 1042156002883 Helix-turn-helix domain; Region: HTH_17; pfam12728 1042156002884 Helix-turn-helix domain; Region: HTH_17; cl17695 1042156002885 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042156002886 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042156002887 active site 1042156002888 DNA binding site [nucleotide binding] 1042156002889 Int/Topo IB signature motif; other site 1042156002890 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156002891 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156002892 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042156002893 dimerization interface [polypeptide binding]; other site 1042156002894 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042156002895 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1042156002896 Uncharacterized conserved protein [Function unknown]; Region: COG5276 1042156002897 Helix-turn-helix domain; Region: HTH_17; pfam12728 1042156002898 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 1042156002899 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 1042156002900 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1042156002901 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1042156002902 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1042156002903 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042156002904 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156002905 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156002906 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042156002907 dimerization interface [polypeptide binding]; other site 1042156002908 substrate binding pocket [chemical binding]; other site 1042156002909 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042156002910 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1042156002911 metal ion-dependent adhesion site (MIDAS); other site 1042156002912 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1042156002913 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1042156002914 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156002915 non-specific DNA binding site [nucleotide binding]; other site 1042156002916 salt bridge; other site 1042156002917 sequence-specific DNA binding site [nucleotide binding]; other site 1042156002918 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 1042156002919 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1042156002920 PAS fold; Region: PAS; pfam00989 1042156002921 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1042156002922 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156002923 Walker A motif; other site 1042156002924 ATP binding site [chemical binding]; other site 1042156002925 Walker B motif; other site 1042156002926 arginine finger; other site 1042156002927 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042156002928 Putative cyclase; Region: Cyclase; pfam04199 1042156002929 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1042156002930 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1042156002931 Na binding site [ion binding]; other site 1042156002932 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1042156002933 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1042156002934 putative acyltransferase; Provisional; Region: PRK05790 1042156002935 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042156002936 dimer interface [polypeptide binding]; other site 1042156002937 active site 1042156002938 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 1042156002939 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1042156002940 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1042156002941 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1042156002942 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1042156002943 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1042156002944 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1042156002945 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 1042156002946 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1042156002947 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 1042156002948 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042156002949 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042156002950 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042156002951 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1042156002952 dimer interface [polypeptide binding]; other site 1042156002953 active site 1042156002954 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 1042156002955 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042156002956 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042156002957 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1042156002958 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042156002959 PAS domain; Region: PAS; smart00091 1042156002960 PAS domain; Region: PAS_9; pfam13426 1042156002961 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042156002962 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156002963 Walker A motif; other site 1042156002964 ATP binding site [chemical binding]; other site 1042156002965 Walker B motif; other site 1042156002966 arginine finger; other site 1042156002967 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1042156002968 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 1042156002969 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1042156002970 active site 1042156002971 catalytic tetrad [active] 1042156002972 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1042156002973 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1042156002974 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042156002975 Coenzyme A binding pocket [chemical binding]; other site 1042156002976 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1042156002977 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1042156002978 glutamine binding [chemical binding]; other site 1042156002979 catalytic triad [active] 1042156002980 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1042156002981 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1042156002982 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1042156002983 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1042156002984 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 1042156002985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156002986 catalytic residue [active] 1042156002987 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042156002988 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156002989 active site 1042156002990 phosphorylation site [posttranslational modification] 1042156002991 intermolecular recognition site; other site 1042156002992 dimerization interface [polypeptide binding]; other site 1042156002993 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042156002994 DNA binding site [nucleotide binding] 1042156002995 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042156002996 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042156002997 dimer interface [polypeptide binding]; other site 1042156002998 phosphorylation site [posttranslational modification] 1042156002999 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156003000 ATP binding site [chemical binding]; other site 1042156003001 Mg2+ binding site [ion binding]; other site 1042156003002 G-X-G motif; other site 1042156003003 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 1042156003004 putative active site [active] 1042156003005 Predicted transcriptional regulators [Transcription]; Region: COG1733 1042156003006 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042156003007 dimerization interface [polypeptide binding]; other site 1042156003008 putative DNA binding site [nucleotide binding]; other site 1042156003009 putative Zn2+ binding site [ion binding]; other site 1042156003010 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1042156003011 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156003012 Walker A motif; other site 1042156003013 ATP binding site [chemical binding]; other site 1042156003014 Walker B motif; other site 1042156003015 arginine finger; other site 1042156003016 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1042156003017 Cupin domain; Region: Cupin_2; pfam07883 1042156003018 Bacterial SH3 domain; Region: SH3_3; pfam08239 1042156003019 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1042156003020 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1042156003021 active site 1042156003022 HIGH motif; other site 1042156003023 dimer interface [polypeptide binding]; other site 1042156003024 KMSKS motif; other site 1042156003025 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042156003026 RNA binding surface [nucleotide binding]; other site 1042156003027 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042156003028 Double zinc ribbon; Region: DZR; pfam12773 1042156003029 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1042156003030 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1042156003031 active site 1042156003032 HIGH motif; other site 1042156003033 KMSKS motif; other site 1042156003034 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1042156003035 tRNA binding surface [nucleotide binding]; other site 1042156003036 anticodon binding site; other site 1042156003037 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1042156003038 dimer interface [polypeptide binding]; other site 1042156003039 putative tRNA-binding site [nucleotide binding]; other site 1042156003040 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156003041 putative substrate translocation pore; other site 1042156003042 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042156003043 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042156003044 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1042156003045 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1042156003046 Acyl transferase domain; Region: Acyl_transf_1; cl08282 1042156003047 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1042156003048 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1042156003049 Histidine kinase; Region: His_kinase; pfam06580 1042156003050 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156003051 ATP binding site [chemical binding]; other site 1042156003052 Mg2+ binding site [ion binding]; other site 1042156003053 G-X-G motif; other site 1042156003054 Response regulator receiver domain; Region: Response_reg; pfam00072 1042156003055 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156003056 active site 1042156003057 phosphorylation site [posttranslational modification] 1042156003058 intermolecular recognition site; other site 1042156003059 dimerization interface [polypeptide binding]; other site 1042156003060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156003061 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042156003062 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156003063 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 1042156003064 WYL domain; Region: WYL; pfam13280 1042156003065 FtsH Extracellular; Region: FtsH_ext; pfam06480 1042156003066 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1042156003067 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1042156003068 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156003069 Walker A motif; other site 1042156003070 ATP binding site [chemical binding]; other site 1042156003071 Walker B motif; other site 1042156003072 arginine finger; other site 1042156003073 Peptidase family M41; Region: Peptidase_M41; pfam01434 1042156003074 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1042156003075 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1042156003076 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042156003077 ATP binding site [chemical binding]; other site 1042156003078 putative Mg++ binding site [ion binding]; other site 1042156003079 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042156003080 nucleotide binding region [chemical binding]; other site 1042156003081 ATP-binding site [chemical binding]; other site 1042156003082 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1042156003083 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1042156003084 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1042156003085 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1042156003086 PhoU domain; Region: PhoU; pfam01895 1042156003087 PhoU domain; Region: PhoU; pfam01895 1042156003088 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 1042156003089 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1042156003090 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1042156003091 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09566 1042156003092 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1042156003093 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1042156003094 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1042156003095 MarR family; Region: MarR_2; pfam12802 1042156003096 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156003097 putative substrate translocation pore; other site 1042156003098 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042156003099 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156003100 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1042156003101 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1042156003102 active site 1042156003103 nucleophile elbow; other site 1042156003104 Restriction endonuclease; Region: Mrr_cat; pfam04471 1042156003105 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 1042156003106 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1042156003107 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1042156003108 FeoA domain; Region: FeoA; pfam04023 1042156003109 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1042156003110 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1042156003111 G1 box; other site 1042156003112 GTP/Mg2+ binding site [chemical binding]; other site 1042156003113 Switch I region; other site 1042156003114 G2 box; other site 1042156003115 G3 box; other site 1042156003116 Switch II region; other site 1042156003117 G4 box; other site 1042156003118 G5 box; other site 1042156003119 Nucleoside recognition; Region: Gate; pfam07670 1042156003120 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1042156003121 Nucleoside recognition; Region: Gate; pfam07670 1042156003122 Protein of unknown function DUF45; Region: DUF45; pfam01863 1042156003123 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 1042156003124 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1042156003125 homodimer interface [polypeptide binding]; other site 1042156003126 substrate-cofactor binding pocket; other site 1042156003127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156003128 catalytic residue [active] 1042156003129 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1042156003130 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042156003131 ligand binding site [chemical binding]; other site 1042156003132 flexible hinge region; other site 1042156003133 putative switch regulator; other site 1042156003134 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1042156003135 non-specific DNA interactions [nucleotide binding]; other site 1042156003136 DNA binding site [nucleotide binding] 1042156003137 sequence specific DNA binding site [nucleotide binding]; other site 1042156003138 putative cAMP binding site [chemical binding]; other site 1042156003139 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1042156003140 flavodoxin; Provisional; Region: PRK06242 1042156003141 DJ-1 family protein; Region: not_thiJ; TIGR01383 1042156003142 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1042156003143 conserved cys residue [active] 1042156003144 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 1042156003145 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1042156003146 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1042156003147 putative efflux protein, MATE family; Region: matE; TIGR00797 1042156003148 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042156003149 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1042156003150 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042156003151 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 1042156003152 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1042156003153 dimer interface [polypeptide binding]; other site 1042156003154 PYR/PP interface [polypeptide binding]; other site 1042156003155 TPP binding site [chemical binding]; other site 1042156003156 substrate binding site [chemical binding]; other site 1042156003157 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 1042156003158 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1042156003159 TPP-binding site [chemical binding]; other site 1042156003160 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 1042156003161 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1042156003162 MarR family; Region: MarR_2; pfam12802 1042156003163 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1042156003164 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1042156003165 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042156003166 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042156003167 Walker A/P-loop; other site 1042156003168 ATP binding site [chemical binding]; other site 1042156003169 Q-loop/lid; other site 1042156003170 ABC transporter signature motif; other site 1042156003171 Walker B; other site 1042156003172 D-loop; other site 1042156003173 H-loop/switch region; other site 1042156003174 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1042156003175 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042156003176 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1042156003177 Walker A/P-loop; other site 1042156003178 ATP binding site [chemical binding]; other site 1042156003179 Q-loop/lid; other site 1042156003180 ABC transporter signature motif; other site 1042156003181 Walker B; other site 1042156003182 D-loop; other site 1042156003183 H-loop/switch region; other site 1042156003184 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1042156003185 putative dimer interface [polypeptide binding]; other site 1042156003186 catalytic triad [active] 1042156003187 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1042156003188 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042156003189 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1042156003190 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1042156003191 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1042156003192 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1042156003193 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1042156003194 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 1042156003195 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1042156003196 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 1042156003197 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1042156003198 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1042156003199 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1042156003200 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 1042156003201 beta subunit interaction interface [polypeptide binding]; other site 1042156003202 Walker A motif; other site 1042156003203 ATP binding site [chemical binding]; other site 1042156003204 Walker B motif; other site 1042156003205 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1042156003206 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1042156003207 core domain interface [polypeptide binding]; other site 1042156003208 delta subunit interface [polypeptide binding]; other site 1042156003209 epsilon subunit interface [polypeptide binding]; other site 1042156003210 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1042156003211 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1042156003212 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 1042156003213 alpha subunit interaction interface [polypeptide binding]; other site 1042156003214 Walker A motif; other site 1042156003215 ATP binding site [chemical binding]; other site 1042156003216 Walker B motif; other site 1042156003217 inhibitor binding site; inhibition site 1042156003218 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1042156003219 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1042156003220 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1042156003221 gamma subunit interface [polypeptide binding]; other site 1042156003222 epsilon subunit interface [polypeptide binding]; other site 1042156003223 LBP interface [polypeptide binding]; other site 1042156003224 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1042156003225 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1042156003226 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042156003227 catalytic residue [active] 1042156003228 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1042156003229 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1042156003230 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1042156003231 active site 1042156003232 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 1042156003233 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1042156003234 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 1042156003235 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 1042156003236 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1042156003237 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156003238 S-adenosylmethionine binding site [chemical binding]; other site 1042156003239 Predicted methyltransferases [General function prediction only]; Region: COG0313 1042156003240 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1042156003241 putative SAM binding site [chemical binding]; other site 1042156003242 putative homodimer interface [polypeptide binding]; other site 1042156003243 Sulfatase; Region: Sulfatase; cl17466 1042156003244 NAD-dependent deacetylase; Provisional; Region: PRK00481 1042156003245 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1042156003246 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1042156003247 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1042156003248 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 1042156003249 dimer interface [polypeptide binding]; other site 1042156003250 ssDNA binding site [nucleotide binding]; other site 1042156003251 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1042156003252 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1042156003253 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1042156003254 amino acid carrier protein; Region: agcS; TIGR00835 1042156003255 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1042156003256 DHH family; Region: DHH; pfam01368 1042156003257 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1042156003258 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1042156003259 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1042156003260 replicative DNA helicase; Region: DnaB; TIGR00665 1042156003261 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1042156003262 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 1042156003263 Walker A motif; other site 1042156003264 ATP binding site [chemical binding]; other site 1042156003265 Walker B motif; other site 1042156003266 DNA binding loops [nucleotide binding] 1042156003267 glutamate dehydrogenase; Provisional; Region: PRK09414 1042156003268 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1042156003269 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1042156003270 NAD(P) binding site [chemical binding]; other site 1042156003271 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1042156003272 regulatory protein interface [polypeptide binding]; other site 1042156003273 regulatory phosphorylation site [posttranslational modification]; other site 1042156003274 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 1042156003275 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1042156003276 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042156003277 active site 1042156003278 DNA replication protein DnaC; Validated; Region: PRK06835 1042156003279 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1042156003280 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1042156003281 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1042156003282 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1042156003283 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042156003284 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042156003285 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 1042156003286 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1042156003287 ligand binding site; other site 1042156003288 oligomer interface; other site 1042156003289 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1042156003290 dimer interface [polypeptide binding]; other site 1042156003291 N-terminal domain interface [polypeptide binding]; other site 1042156003292 sulfate 1 binding site; other site 1042156003293 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 1042156003294 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1042156003295 ligand binding site; other site 1042156003296 oligomer interface; other site 1042156003297 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1042156003298 dimer interface [polypeptide binding]; other site 1042156003299 N-terminal domain interface [polypeptide binding]; other site 1042156003300 regulatory protein SpoVG; Reviewed; Region: PRK13259 1042156003301 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 1042156003302 putative active site [active] 1042156003303 catalytic residue [active] 1042156003304 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1042156003305 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 1042156003306 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042156003307 ATP binding site [chemical binding]; other site 1042156003308 putative Mg++ binding site [ion binding]; other site 1042156003309 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042156003310 nucleotide binding region [chemical binding]; other site 1042156003311 ATP-binding site [chemical binding]; other site 1042156003312 TRCF domain; Region: TRCF; pfam03461 1042156003313 shikimate kinase; Reviewed; Region: aroK; PRK00131 1042156003314 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 1042156003315 ADP binding site [chemical binding]; other site 1042156003316 magnesium binding site [ion binding]; other site 1042156003317 putative shikimate binding site; other site 1042156003318 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1042156003319 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 1042156003320 hinge; other site 1042156003321 active site 1042156003322 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1042156003323 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1042156003324 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1042156003325 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1042156003326 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042156003327 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1042156003328 dimerization interface [polypeptide binding]; other site 1042156003329 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042156003330 dimer interface [polypeptide binding]; other site 1042156003331 phosphorylation site [posttranslational modification] 1042156003332 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156003333 ATP binding site [chemical binding]; other site 1042156003334 Mg2+ binding site [ion binding]; other site 1042156003335 G-X-G motif; other site 1042156003336 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1042156003337 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156003338 active site 1042156003339 phosphorylation site [posttranslational modification] 1042156003340 intermolecular recognition site; other site 1042156003341 dimerization interface [polypeptide binding]; other site 1042156003342 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042156003343 DNA binding site [nucleotide binding] 1042156003344 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1042156003345 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1042156003346 active site 1042156003347 prolyl-tRNA synthetase; Provisional; Region: PRK08661 1042156003348 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 1042156003349 dimer interface [polypeptide binding]; other site 1042156003350 motif 1; other site 1042156003351 active site 1042156003352 motif 2; other site 1042156003353 motif 3; other site 1042156003354 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 1042156003355 anticodon binding site; other site 1042156003356 zinc-binding site [ion binding]; other site 1042156003357 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1042156003358 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1042156003359 active site 1042156003360 NTP binding site [chemical binding]; other site 1042156003361 metal binding triad [ion binding]; metal-binding site 1042156003362 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1042156003363 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042156003364 Zn2+ binding site [ion binding]; other site 1042156003365 Mg2+ binding site [ion binding]; other site 1042156003366 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1042156003367 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1042156003368 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1042156003369 active site 1042156003370 substrate binding site [chemical binding]; other site 1042156003371 metal binding site [ion binding]; metal-binding site 1042156003372 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1042156003373 IHF dimer interface [polypeptide binding]; other site 1042156003374 IHF - DNA interface [nucleotide binding]; other site 1042156003375 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042156003376 RNA binding surface [nucleotide binding]; other site 1042156003377 Septum formation initiator; Region: DivIC; pfam04977 1042156003378 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1042156003379 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 1042156003380 Ligand Binding Site [chemical binding]; other site 1042156003381 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1042156003382 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042156003383 active site 1042156003384 FtsH Extracellular; Region: FtsH_ext; pfam06480 1042156003385 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1042156003386 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156003387 Walker A motif; other site 1042156003388 ATP binding site [chemical binding]; other site 1042156003389 Walker B motif; other site 1042156003390 arginine finger; other site 1042156003391 Peptidase family M41; Region: Peptidase_M41; pfam01434 1042156003392 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 1042156003393 homodimer interface [polypeptide binding]; other site 1042156003394 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 1042156003395 active site 1042156003396 homodimer interface [polypeptide binding]; other site 1042156003397 catalytic site [active] 1042156003398 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 1042156003399 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1042156003400 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042156003401 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1042156003402 Predicted membrane protein [Function unknown]; Region: COG1511 1042156003403 Predicted membrane protein [Function unknown]; Region: COG1511 1042156003404 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1042156003405 B12 binding domain; Region: B12-binding; pfam02310 1042156003406 B12 binding site [chemical binding]; other site 1042156003407 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1042156003408 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156003409 FeS/SAM binding site; other site 1042156003410 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 1042156003411 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1042156003412 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1042156003413 minor groove reading motif; other site 1042156003414 helix-hairpin-helix signature motif; other site 1042156003415 substrate binding pocket [chemical binding]; other site 1042156003416 active site 1042156003417 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1042156003418 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1042156003419 Ligand binding site; other site 1042156003420 Putative Catalytic site; other site 1042156003421 DXD motif; other site 1042156003422 Predicted membrane protein [Function unknown]; Region: COG2246 1042156003423 GtrA-like protein; Region: GtrA; pfam04138 1042156003424 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1042156003425 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042156003426 catalytic residues [active] 1042156003427 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1042156003428 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042156003429 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042156003430 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042156003431 MarR family; Region: MarR; pfam01047 1042156003432 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 1042156003433 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1042156003434 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1042156003435 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1042156003436 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1042156003437 active site 1042156003438 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1042156003439 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 1042156003440 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1042156003441 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156003442 Walker A motif; other site 1042156003443 ATP binding site [chemical binding]; other site 1042156003444 Walker B motif; other site 1042156003445 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 1042156003446 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1042156003447 dimerization interface 3.5A [polypeptide binding]; other site 1042156003448 active site 1042156003449 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156003450 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156003451 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156003452 dimerization interface [polypeptide binding]; other site 1042156003453 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1042156003454 Domain of unknown function DUF77; Region: DUF77; pfam01910 1042156003455 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042156003456 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042156003457 dimer interface [polypeptide binding]; other site 1042156003458 conserved gate region; other site 1042156003459 putative PBP binding loops; other site 1042156003460 ABC-ATPase subunit interface; other site 1042156003461 NMT1/THI5 like; Region: NMT1; pfam09084 1042156003462 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 1042156003463 substrate binding pocket [chemical binding]; other site 1042156003464 membrane-bound complex binding site; other site 1042156003465 hinge residues; other site 1042156003466 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1042156003467 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042156003468 Walker A/P-loop; other site 1042156003469 ATP binding site [chemical binding]; other site 1042156003470 Q-loop/lid; other site 1042156003471 ABC transporter signature motif; other site 1042156003472 Walker B; other site 1042156003473 D-loop; other site 1042156003474 H-loop/switch region; other site 1042156003475 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 1042156003476 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 1042156003477 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1042156003478 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1042156003479 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1042156003480 active site 1042156003481 SAM binding site [chemical binding]; other site 1042156003482 homodimer interface [polypeptide binding]; other site 1042156003483 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 1042156003484 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1042156003485 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1042156003486 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1042156003487 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1042156003488 active site 1042156003489 SAM binding site [chemical binding]; other site 1042156003490 homodimer interface [polypeptide binding]; other site 1042156003491 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 1042156003492 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1042156003493 active site 1042156003494 putative homodimer interface [polypeptide binding]; other site 1042156003495 SAM binding site [chemical binding]; other site 1042156003496 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1042156003497 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156003498 S-adenosylmethionine binding site [chemical binding]; other site 1042156003499 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1042156003500 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1042156003501 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1042156003502 catalytic triad [active] 1042156003503 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 1042156003504 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 1042156003505 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1042156003506 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 1042156003507 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042156003508 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156003509 homodimer interface [polypeptide binding]; other site 1042156003510 catalytic residue [active] 1042156003511 cobyric acid synthase; Provisional; Region: PRK00784 1042156003512 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042156003513 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042156003514 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1042156003515 catalytic triad [active] 1042156003516 Sensory domain found in PocR; Region: PocR; pfam10114 1042156003517 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1042156003518 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156003519 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042156003520 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156003521 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 1042156003522 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 1042156003523 B12 binding site [chemical binding]; other site 1042156003524 cobalt ligand [ion binding]; other site 1042156003525 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042156003526 catalytic loop [active] 1042156003527 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 1042156003528 iron binding site [ion binding]; other site 1042156003529 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 1042156003530 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1042156003531 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1042156003532 putative dimer interface [polypeptide binding]; other site 1042156003533 active site pocket [active] 1042156003534 putative cataytic base [active] 1042156003535 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156003536 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156003537 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042156003538 dimerization interface [polypeptide binding]; other site 1042156003539 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1042156003540 Na binding site [ion binding]; other site 1042156003541 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1042156003542 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 1042156003543 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 1042156003544 Quinolinate synthetase A protein; Region: NadA; pfam02445 1042156003545 L-aspartate oxidase; Provisional; Region: PRK06175 1042156003546 FAD binding domain; Region: FAD_binding_2; pfam00890 1042156003547 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 1042156003548 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 1042156003549 dimerization interface [polypeptide binding]; other site 1042156003550 active site 1042156003551 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1042156003552 HTH domain; Region: HTH_11; pfam08279 1042156003553 3H domain; Region: 3H; pfam02829 1042156003554 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1042156003555 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042156003556 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1042156003557 HTH-like domain; Region: HTH_21; pfam13276 1042156003558 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 1042156003559 amphipathic channel; other site 1042156003560 Asn-Pro-Ala signature motifs; other site 1042156003561 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042156003562 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042156003563 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1042156003564 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 1042156003565 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156003566 domain interaction interfaces [polypeptide binding]; other site 1042156003567 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156003568 domain interaction interfaces [polypeptide binding]; other site 1042156003569 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156003570 domain interaction interfaces [polypeptide binding]; other site 1042156003571 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156003572 domain interaction interfaces [polypeptide binding]; other site 1042156003573 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156003574 domain interaction interfaces [polypeptide binding]; other site 1042156003575 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156003576 domain interaction interfaces [polypeptide binding]; other site 1042156003577 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156003578 domain interaction interfaces [polypeptide binding]; other site 1042156003579 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156003580 domain interaction interfaces [polypeptide binding]; other site 1042156003581 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042156003582 MULE transposase domain; Region: MULE; pfam10551 1042156003583 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1042156003584 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042156003585 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042156003586 MULE transposase domain; Region: MULE; pfam10551 1042156003587 TfoX N-terminal domain; Region: TfoX_N; cl17592 1042156003588 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1042156003589 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 1042156003590 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156003591 non-specific DNA binding site [nucleotide binding]; other site 1042156003592 salt bridge; other site 1042156003593 sequence-specific DNA binding site [nucleotide binding]; other site 1042156003594 Domain of unknown function (DUF955); Region: DUF955; cl01076 1042156003595 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042156003596 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156003597 non-specific DNA binding site [nucleotide binding]; other site 1042156003598 salt bridge; other site 1042156003599 sequence-specific DNA binding site [nucleotide binding]; other site 1042156003600 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042156003601 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156003602 non-specific DNA binding site [nucleotide binding]; other site 1042156003603 salt bridge; other site 1042156003604 sequence-specific DNA binding site [nucleotide binding]; other site 1042156003605 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042156003606 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042156003607 MULE transposase domain; Region: MULE; pfam10551 1042156003608 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1042156003609 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042156003610 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042156003611 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1042156003612 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042156003613 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1042156003614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042156003615 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042156003616 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156003617 non-specific DNA binding site [nucleotide binding]; other site 1042156003618 salt bridge; other site 1042156003619 sequence-specific DNA binding site [nucleotide binding]; other site 1042156003620 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1042156003621 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 1042156003622 PemK-like protein; Region: PemK; pfam02452 1042156003623 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 1042156003624 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1042156003625 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1042156003626 Int/Topo IB signature motif; other site 1042156003627 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1042156003628 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 1042156003629 putative dimer interface [polypeptide binding]; other site 1042156003630 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1042156003631 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1042156003632 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1042156003633 PhoU domain; Region: PhoU; pfam01895 1042156003634 PhoU domain; Region: PhoU; pfam01895 1042156003635 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042156003636 dimerization interface [polypeptide binding]; other site 1042156003637 putative DNA binding site [nucleotide binding]; other site 1042156003638 putative Zn2+ binding site [ion binding]; other site 1042156003639 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1042156003640 metal-binding site [ion binding] 1042156003641 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1042156003642 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1042156003643 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1042156003644 FeoA domain; Region: FeoA; pfam04023 1042156003645 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1042156003646 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1042156003647 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1042156003648 G1 box; other site 1042156003649 GTP/Mg2+ binding site [chemical binding]; other site 1042156003650 Switch I region; other site 1042156003651 G2 box; other site 1042156003652 G3 box; other site 1042156003653 Switch II region; other site 1042156003654 G4 box; other site 1042156003655 G5 box; other site 1042156003656 Nucleoside recognition; Region: Gate; pfam07670 1042156003657 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1042156003658 Nucleoside recognition; Region: Gate; pfam07670 1042156003659 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1042156003660 active site residue [active] 1042156003661 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1042156003662 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 1042156003663 Ligand Binding Site [chemical binding]; other site 1042156003664 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 1042156003665 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1042156003666 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1042156003667 Catalytic site [active] 1042156003668 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1042156003669 metal ion-dependent adhesion site (MIDAS); other site 1042156003670 Cna protein B-type domain; Region: Cna_B; pfam05738 1042156003671 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1042156003672 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1042156003673 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1042156003674 active site 1042156003675 catalytic site [active] 1042156003676 Cna protein B-type domain; Region: Cna_B; pfam05738 1042156003677 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cd00004 1042156003678 active site 1042156003679 catalytic site [active] 1042156003680 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1042156003681 NlpC/P60 family; Region: NLPC_P60; cl17555 1042156003682 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1042156003683 putative deacylase active site [active] 1042156003684 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 1042156003685 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_4; cd13144 1042156003686 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1042156003687 Predicted permeases [General function prediction only]; Region: COG0679 1042156003688 FtsH Extracellular; Region: FtsH_ext; pfam06480 1042156003689 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1042156003690 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1042156003691 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156003692 Walker A motif; other site 1042156003693 ATP binding site [chemical binding]; other site 1042156003694 Walker B motif; other site 1042156003695 arginine finger; other site 1042156003696 Peptidase family M41; Region: Peptidase_M41; pfam01434 1042156003697 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1042156003698 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1042156003699 GIY-YIG motif/motif A; other site 1042156003700 active site 1042156003701 catalytic site [active] 1042156003702 putative DNA binding site [nucleotide binding]; other site 1042156003703 metal binding site [ion binding]; metal-binding site 1042156003704 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1042156003705 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 1042156003706 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1042156003707 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1042156003708 Hpr binding site; other site 1042156003709 active site 1042156003710 homohexamer subunit interaction site [polypeptide binding]; other site 1042156003711 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 1042156003712 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1042156003713 oligomer interface [polypeptide binding]; other site 1042156003714 putative active site [active] 1042156003715 metal binding site [ion binding]; metal-binding site 1042156003716 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1042156003717 FAD binding domain; Region: FAD_binding_4; pfam01565 1042156003718 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1042156003719 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1042156003720 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1042156003721 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1042156003722 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1042156003723 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1042156003724 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 1042156003725 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 1042156003726 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1042156003727 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1042156003728 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1042156003729 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1042156003730 S1 domain; Region: S1_2; pfam13509 1042156003731 S1 domain; Region: S1_2; pfam13509 1042156003732 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1042156003733 RNA binding site [nucleotide binding]; other site 1042156003734 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1042156003735 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1042156003736 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1042156003737 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1042156003738 Transglycosylase; Region: Transgly; pfam00912 1042156003739 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1042156003740 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cl04270 1042156003741 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042156003742 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1042156003743 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042156003744 Walker A/P-loop; other site 1042156003745 ATP binding site [chemical binding]; other site 1042156003746 Q-loop/lid; other site 1042156003747 ABC transporter signature motif; other site 1042156003748 Walker B; other site 1042156003749 D-loop; other site 1042156003750 H-loop/switch region; other site 1042156003751 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1042156003752 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1042156003753 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1042156003754 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1042156003755 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1042156003756 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1042156003757 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1042156003758 protein binding site [polypeptide binding]; other site 1042156003759 carbamate kinase; Reviewed; Region: PRK12686 1042156003760 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1042156003761 putative substrate binding site [chemical binding]; other site 1042156003762 nucleotide binding site [chemical binding]; other site 1042156003763 nucleotide binding site [chemical binding]; other site 1042156003764 homodimer interface [polypeptide binding]; other site 1042156003765 pyruvate kinase; Provisional; Region: PRK06354 1042156003766 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1042156003767 domain interfaces; other site 1042156003768 active site 1042156003769 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 1042156003770 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1042156003771 active site 1042156003772 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1042156003773 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1042156003774 active site 1042156003775 HIGH motif; other site 1042156003776 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1042156003777 active site 1042156003778 KMSKS motif; other site 1042156003779 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1042156003780 ATP cone domain; Region: ATP-cone; pfam03477 1042156003781 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1042156003782 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1042156003783 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156003784 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156003785 Transposase; Region: HTH_Tnp_1; pfam01527 1042156003786 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042156003787 putative transposase OrfB; Reviewed; Region: PHA02517 1042156003788 HTH-like domain; Region: HTH_21; pfam13276 1042156003789 Integrase core domain; Region: rve; pfam00665 1042156003790 Integrase core domain; Region: rve_2; pfam13333 1042156003791 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042156003792 dimerization interface [polypeptide binding]; other site 1042156003793 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156003794 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1042156003795 Coenzyme A transferase; Region: CoA_trans; smart00882 1042156003796 Coenzyme A transferase; Region: CoA_trans; cl17247 1042156003797 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1042156003798 HD domain; Region: HD_4; pfam13328 1042156003799 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1042156003800 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1042156003801 putative active site [active] 1042156003802 putative NTP binding site [chemical binding]; other site 1042156003803 putative nucleic acid binding site [nucleotide binding]; other site 1042156003804 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1042156003805 Predicted membrane protein [Function unknown]; Region: COG1511 1042156003806 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1042156003807 Predicted membrane protein [Function unknown]; Region: COG1511 1042156003808 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1042156003809 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1042156003810 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042156003811 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1042156003812 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156003813 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156003814 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156003815 dimerization interface [polypeptide binding]; other site 1042156003816 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 1042156003817 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1042156003818 homodimer interface [polypeptide binding]; other site 1042156003819 substrate-cofactor binding pocket; other site 1042156003820 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156003821 catalytic residue [active] 1042156003822 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1042156003823 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1042156003824 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156003825 FeS/SAM binding site; other site 1042156003826 L-aspartate oxidase; Provisional; Region: PRK06175 1042156003827 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1042156003828 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042156003829 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1042156003830 Na2 binding site [ion binding]; other site 1042156003831 putative substrate binding site 1 [chemical binding]; other site 1042156003832 Na binding site 1 [ion binding]; other site 1042156003833 putative substrate binding site 2 [chemical binding]; other site 1042156003834 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1042156003835 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1042156003836 putative substrate binding site [chemical binding]; other site 1042156003837 putative ATP binding site [chemical binding]; other site 1042156003838 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1042156003839 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042156003840 active site 1042156003841 motif I; other site 1042156003842 motif II; other site 1042156003843 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042156003844 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1042156003845 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156003846 S-adenosylmethionine binding site [chemical binding]; other site 1042156003847 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156003848 S-adenosylmethionine binding site [chemical binding]; other site 1042156003849 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1042156003850 putative substrate binding site 1 [chemical binding]; other site 1042156003851 Na binding site 1 [ion binding]; other site 1042156003852 putative substrate binding site 2 [chemical binding]; other site 1042156003853 Na2 binding site [ion binding]; other site 1042156003854 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1042156003855 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 1042156003856 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1042156003857 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1042156003858 trigger factor; Provisional; Region: tig; PRK01490 1042156003859 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1042156003860 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1042156003861 Clp protease; Region: CLP_protease; pfam00574 1042156003862 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1042156003863 oligomer interface [polypeptide binding]; other site 1042156003864 active site residues [active] 1042156003865 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1042156003866 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1042156003867 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156003868 Walker A motif; other site 1042156003869 ATP binding site [chemical binding]; other site 1042156003870 Walker B motif; other site 1042156003871 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1042156003872 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1042156003873 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156003874 Walker A motif; other site 1042156003875 ATP binding site [chemical binding]; other site 1042156003876 Walker B motif; other site 1042156003877 arginine finger; other site 1042156003878 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1042156003879 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1042156003880 G1 box; other site 1042156003881 GTP/Mg2+ binding site [chemical binding]; other site 1042156003882 Switch I region; other site 1042156003883 G2 box; other site 1042156003884 G3 box; other site 1042156003885 Switch II region; other site 1042156003886 G4 box; other site 1042156003887 G5 box; other site 1042156003888 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1042156003889 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1042156003890 intersubunit interface [polypeptide binding]; other site 1042156003891 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1042156003892 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042156003893 Walker A/P-loop; other site 1042156003894 ATP binding site [chemical binding]; other site 1042156003895 Q-loop/lid; other site 1042156003896 ABC transporter signature motif; other site 1042156003897 Walker B; other site 1042156003898 D-loop; other site 1042156003899 H-loop/switch region; other site 1042156003900 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1042156003901 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1042156003902 ABC-ATPase subunit interface; other site 1042156003903 dimer interface [polypeptide binding]; other site 1042156003904 putative PBP binding regions; other site 1042156003905 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1042156003906 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042156003907 active site 1042156003908 HIGH motif; other site 1042156003909 nucleotide binding site [chemical binding]; other site 1042156003910 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1042156003911 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1042156003912 active site 1042156003913 KMSKS motif; other site 1042156003914 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1042156003915 tRNA binding surface [nucleotide binding]; other site 1042156003916 anticodon binding site; other site 1042156003917 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1042156003918 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1042156003919 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1042156003920 binding surface 1042156003921 TPR motif; other site 1042156003922 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1042156003923 binding surface 1042156003924 TPR motif; other site 1042156003925 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1042156003926 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1042156003927 active site 1042156003928 FMN binding site [chemical binding]; other site 1042156003929 substrate binding site [chemical binding]; other site 1042156003930 putative catalytic residues [active] 1042156003931 Helix-turn-helix domain; Region: HTH_28; pfam13518 1042156003932 Winged helix-turn helix; Region: HTH_29; pfam13551 1042156003933 putative transposase OrfB; Reviewed; Region: PHA02517 1042156003934 HTH-like domain; Region: HTH_21; pfam13276 1042156003935 Integrase core domain; Region: rve; pfam00665 1042156003936 Integrase core domain; Region: rve_2; pfam13333 1042156003937 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042156003938 MULE transposase domain; Region: MULE; pfam10551 1042156003939 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1042156003940 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1042156003941 ligand binding site [chemical binding]; other site 1042156003942 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1042156003943 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1042156003944 Walker A/P-loop; other site 1042156003945 ATP binding site [chemical binding]; other site 1042156003946 Q-loop/lid; other site 1042156003947 ABC transporter signature motif; other site 1042156003948 Walker B; other site 1042156003949 D-loop; other site 1042156003950 H-loop/switch region; other site 1042156003951 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1042156003952 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042156003953 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1042156003954 TM-ABC transporter signature motif; other site 1042156003955 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1042156003956 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1042156003957 DNA binding residues [nucleotide binding] 1042156003958 drug binding residues [chemical binding]; other site 1042156003959 dimer interface [polypeptide binding]; other site 1042156003960 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1042156003961 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1042156003962 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 1042156003963 GTP binding site; other site 1042156003964 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1042156003965 Walker A motif; other site 1042156003966 PBP superfamily domain; Region: PBP_like_2; cl17296 1042156003967 PBP superfamily domain; Region: PBP_like_2; cl17296 1042156003968 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1042156003969 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042156003970 dimer interface [polypeptide binding]; other site 1042156003971 conserved gate region; other site 1042156003972 putative PBP binding loops; other site 1042156003973 ABC-ATPase subunit interface; other site 1042156003974 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1042156003975 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042156003976 dimer interface [polypeptide binding]; other site 1042156003977 conserved gate region; other site 1042156003978 putative PBP binding loops; other site 1042156003979 ABC-ATPase subunit interface; other site 1042156003980 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 1042156003981 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1042156003982 Walker A/P-loop; other site 1042156003983 ATP binding site [chemical binding]; other site 1042156003984 Q-loop/lid; other site 1042156003985 ABC transporter signature motif; other site 1042156003986 Walker B; other site 1042156003987 D-loop; other site 1042156003988 H-loop/switch region; other site 1042156003989 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1042156003990 PhoU domain; Region: PhoU; pfam01895 1042156003991 PhoU domain; Region: PhoU; pfam01895 1042156003992 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1042156003993 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156003994 putative substrate translocation pore; other site 1042156003995 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1042156003996 catalytic core [active] 1042156003997 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1042156003998 TrkA-N domain; Region: TrkA_N; pfam02254 1042156003999 TrkA-C domain; Region: TrkA_C; pfam02080 1042156004000 TrkA-N domain; Region: TrkA_N; pfam02254 1042156004001 TrkA-C domain; Region: TrkA_C; pfam02080 1042156004002 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1042156004003 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1042156004004 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1042156004005 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1042156004006 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 1042156004007 catalytic motif [active] 1042156004008 Zn binding site [ion binding]; other site 1042156004009 RibD C-terminal domain; Region: RibD_C; cl17279 1042156004010 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1042156004011 Lumazine binding domain; Region: Lum_binding; pfam00677 1042156004012 Lumazine binding domain; Region: Lum_binding; pfam00677 1042156004013 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1042156004014 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1042156004015 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1042156004016 dimerization interface [polypeptide binding]; other site 1042156004017 active site 1042156004018 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 1042156004019 homopentamer interface [polypeptide binding]; other site 1042156004020 active site 1042156004021 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 1042156004022 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042156004023 motif II; other site 1042156004024 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1042156004025 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1042156004026 active site 1042156004027 NAD binding site [chemical binding]; other site 1042156004028 metal binding site [ion binding]; metal-binding site 1042156004029 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042156004030 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042156004031 catalytic loop [active] 1042156004032 iron binding site [ion binding]; other site 1042156004033 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 1042156004034 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042156004035 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156004036 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1042156004037 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042156004038 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042156004039 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1042156004040 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1042156004041 Ferredoxin [Energy production and conversion]; Region: COG1146 1042156004042 L-aspartate oxidase; Provisional; Region: PRK06175 1042156004043 hypothetical protein; Validated; Region: PRK07121 1042156004044 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1042156004045 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13540 1042156004046 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042156004047 Walker A/P-loop; other site 1042156004048 ATP binding site [chemical binding]; other site 1042156004049 Q-loop/lid; other site 1042156004050 ABC transporter signature motif; other site 1042156004051 Walker B; other site 1042156004052 D-loop; other site 1042156004053 H-loop/switch region; other site 1042156004054 Predicted transcriptional regulator [Transcription]; Region: COG1959 1042156004055 Transcriptional regulator; Region: Rrf2; cl17282 1042156004056 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1042156004057 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042156004058 PAS domain; Region: PAS_9; pfam13426 1042156004059 putative active site [active] 1042156004060 heme pocket [chemical binding]; other site 1042156004061 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 1042156004062 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156004063 Walker A motif; other site 1042156004064 ATP binding site [chemical binding]; other site 1042156004065 Walker B motif; other site 1042156004066 arginine finger; other site 1042156004067 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042156004068 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1042156004069 Citrate transporter; Region: CitMHS; pfam03600 1042156004070 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1042156004071 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042156004072 active site 1042156004073 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042156004074 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156004075 non-specific DNA binding site [nucleotide binding]; other site 1042156004076 salt bridge; other site 1042156004077 sequence-specific DNA binding site [nucleotide binding]; other site 1042156004078 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042156004079 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042156004080 DNA binding residues [nucleotide binding] 1042156004081 dimerization interface [polypeptide binding]; other site 1042156004082 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1042156004083 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1042156004084 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156004085 FeS/SAM binding site; other site 1042156004086 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 1042156004087 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1042156004088 putative acyltransferase; Provisional; Region: PRK05790 1042156004089 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042156004090 dimer interface [polypeptide binding]; other site 1042156004091 active site 1042156004092 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 1042156004093 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1042156004094 FAD binding pocket [chemical binding]; other site 1042156004095 FAD binding motif [chemical binding]; other site 1042156004096 phosphate binding motif [ion binding]; other site 1042156004097 beta-alpha-beta structure motif; other site 1042156004098 NAD binding pocket [chemical binding]; other site 1042156004099 Iron coordination center [ion binding]; other site 1042156004100 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1042156004101 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 1042156004102 heterodimer interface [polypeptide binding]; other site 1042156004103 active site 1042156004104 FMN binding site [chemical binding]; other site 1042156004105 homodimer interface [polypeptide binding]; other site 1042156004106 substrate binding site [chemical binding]; other site 1042156004107 fumarate hydratase; Provisional; Region: PRK06246 1042156004108 Fumarase C-terminus; Region: Fumerase_C; cl00795 1042156004109 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1042156004110 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1042156004111 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 1042156004112 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042156004113 active site 1042156004114 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1042156004115 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1042156004116 tetramer interface [polypeptide binding]; other site 1042156004117 active site 1042156004118 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1042156004119 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1042156004120 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1042156004121 putative NAD(P) binding site [chemical binding]; other site 1042156004122 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042156004123 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042156004124 DNA-binding site [nucleotide binding]; DNA binding site 1042156004125 FCD domain; Region: FCD; pfam07729 1042156004126 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1042156004127 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1042156004128 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1042156004129 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1042156004130 Interdomain contacts; other site 1042156004131 Cytokine receptor motif; other site 1042156004132 Putative zinc-finger; Region: zf-HC2; pfam13490 1042156004133 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1042156004134 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042156004135 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042156004136 DNA binding residues [nucleotide binding] 1042156004137 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1042156004138 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042156004139 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156004140 active site 1042156004141 phosphorylation site [posttranslational modification] 1042156004142 intermolecular recognition site; other site 1042156004143 dimerization interface [polypeptide binding]; other site 1042156004144 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042156004145 DNA binding site [nucleotide binding] 1042156004146 HAMP domain; Region: HAMP; pfam00672 1042156004147 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042156004148 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042156004149 dimer interface [polypeptide binding]; other site 1042156004150 phosphorylation site [posttranslational modification] 1042156004151 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156004152 ATP binding site [chemical binding]; other site 1042156004153 Mg2+ binding site [ion binding]; other site 1042156004154 G-X-G motif; other site 1042156004155 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042156004156 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1042156004157 ligand binding site [chemical binding]; other site 1042156004158 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1042156004159 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042156004160 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042156004161 putative acyltransferase; Provisional; Region: PRK05790 1042156004162 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042156004163 dimer interface [polypeptide binding]; other site 1042156004164 active site 1042156004165 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1042156004166 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1042156004167 active site 1042156004168 NAD binding site [chemical binding]; other site 1042156004169 metal binding site [ion binding]; metal-binding site 1042156004170 Uncharacterized conserved protein [Function unknown]; Region: COG2006 1042156004171 Domain of unknown function (DUF362); Region: DUF362; pfam04015 1042156004172 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042156004173 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156004174 putative substrate translocation pore; other site 1042156004175 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156004176 putative substrate translocation pore; other site 1042156004177 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1042156004178 PAS domain; Region: PAS_9; pfam13426 1042156004179 putative active site [active] 1042156004180 heme pocket [chemical binding]; other site 1042156004181 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1042156004182 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156004183 Walker A motif; other site 1042156004184 ATP binding site [chemical binding]; other site 1042156004185 Walker B motif; other site 1042156004186 arginine finger; other site 1042156004187 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1042156004188 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 1042156004189 AIR carboxylase; Region: AIRC; smart01001 1042156004190 Uncharacterized family 1; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_1; cd10158 1042156004191 putative homodimer interface [polypeptide binding]; other site 1042156004192 putative homotetramer interface [polypeptide binding]; other site 1042156004193 putative metal binding site [ion binding]; other site 1042156004194 putative homodimer-homodimer interface [polypeptide binding]; other site 1042156004195 putative allosteric switch controlling residues; other site 1042156004196 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 1042156004197 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 1042156004198 Ligand Binding Site [chemical binding]; other site 1042156004199 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 1042156004200 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 1042156004201 NifU-like domain; Region: NifU; cl00484 1042156004202 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 1042156004203 dimer interaction site [polypeptide binding]; other site 1042156004204 substrate-binding tunnel; other site 1042156004205 active site 1042156004206 catalytic site [active] 1042156004207 substrate binding site [chemical binding]; other site 1042156004208 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 1042156004209 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042156004210 NAD(P) binding site [chemical binding]; other site 1042156004211 catalytic residues [active] 1042156004212 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1042156004213 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042156004214 acyl-activating enzyme (AAE) consensus motif; other site 1042156004215 AMP binding site [chemical binding]; other site 1042156004216 active site 1042156004217 CoA binding site [chemical binding]; other site 1042156004218 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1042156004219 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1042156004220 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1042156004221 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1042156004222 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1042156004223 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1042156004224 dimer interface [polypeptide binding]; other site 1042156004225 substrate binding site [chemical binding]; other site 1042156004226 ATP binding site [chemical binding]; other site 1042156004227 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 1042156004228 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 1042156004229 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 1042156004230 putative active site; other site 1042156004231 putative metal binding residues [ion binding]; other site 1042156004232 signature motif; other site 1042156004233 putative triphosphate binding site [ion binding]; other site 1042156004234 YibE/F-like protein; Region: YibE_F; pfam07907 1042156004235 YibE/F-like protein; Region: YibE_F; cl02259 1042156004236 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1042156004237 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 1042156004238 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1042156004239 putative active site [active] 1042156004240 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1042156004241 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1042156004242 Rubredoxin; Region: Rubredoxin; pfam00301 1042156004243 iron binding site [ion binding]; other site 1042156004244 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042156004245 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1042156004246 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042156004247 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1042156004248 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1042156004249 active site 1042156004250 FMN binding site [chemical binding]; other site 1042156004251 substrate binding site [chemical binding]; other site 1042156004252 putative catalytic residue [active] 1042156004253 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042156004254 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042156004255 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1042156004256 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156004257 ATP binding site [chemical binding]; other site 1042156004258 Mg2+ binding site [ion binding]; other site 1042156004259 G-X-G motif; other site 1042156004260 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042156004261 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1042156004262 active site 1042156004263 phosphorylation site [posttranslational modification] 1042156004264 intermolecular recognition site; other site 1042156004265 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042156004266 DNA binding residues [nucleotide binding] 1042156004267 dimerization interface [polypeptide binding]; other site 1042156004268 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042156004269 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1042156004270 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 1042156004271 Uncharacterized conserved protein [Function unknown]; Region: COG2006 1042156004272 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1042156004273 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1042156004274 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 1042156004275 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042156004276 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042156004277 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042156004278 catalytic loop [active] 1042156004279 iron binding site [ion binding]; other site 1042156004280 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1042156004281 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1042156004282 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1042156004283 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1042156004284 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1042156004285 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1042156004286 active site 1042156004287 metal binding site [ion binding]; metal-binding site 1042156004288 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156004289 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156004290 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042156004291 dimerization interface [polypeptide binding]; other site 1042156004292 substrate binding pocket [chemical binding]; other site 1042156004293 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1042156004294 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042156004295 Yqey-like protein; Region: YqeY; cl17540 1042156004296 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1042156004297 30S subunit binding site; other site 1042156004298 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1042156004299 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1042156004300 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1042156004301 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 1042156004302 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1042156004303 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1042156004304 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1042156004305 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1042156004306 tRNA; other site 1042156004307 putative tRNA binding site [nucleotide binding]; other site 1042156004308 putative NADP binding site [chemical binding]; other site 1042156004309 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 1042156004310 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1042156004311 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 1042156004312 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1042156004313 domain interfaces; other site 1042156004314 active site 1042156004315 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1042156004316 active site 1042156004317 SAM binding site [chemical binding]; other site 1042156004318 homodimer interface [polypeptide binding]; other site 1042156004319 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1042156004320 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 1042156004321 active site 1042156004322 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 1042156004323 dimer interface [polypeptide binding]; other site 1042156004324 active site 1042156004325 Schiff base residues; other site 1042156004326 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1042156004327 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1042156004328 inhibitor-cofactor binding pocket; inhibition site 1042156004329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156004330 catalytic residue [active] 1042156004331 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 1042156004332 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1042156004333 substrate binding [chemical binding]; other site 1042156004334 active site 1042156004335 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1042156004336 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1042156004337 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1042156004338 active site turn [active] 1042156004339 phosphorylation site [posttranslational modification] 1042156004340 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1042156004341 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1042156004342 HPr interaction site; other site 1042156004343 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1042156004344 active site 1042156004345 phosphorylation site [posttranslational modification] 1042156004346 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1042156004347 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1042156004348 DNA binding site [nucleotide binding] 1042156004349 domain linker motif; other site 1042156004350 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1042156004351 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 1042156004352 L-aspartate oxidase; Provisional; Region: PRK06175 1042156004353 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1042156004354 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1042156004355 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1042156004356 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1042156004357 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1042156004358 Active Sites [active] 1042156004359 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 1042156004360 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1042156004361 CysD dimerization site [polypeptide binding]; other site 1042156004362 G1 box; other site 1042156004363 putative GEF interaction site [polypeptide binding]; other site 1042156004364 GTP/Mg2+ binding site [chemical binding]; other site 1042156004365 Switch I region; other site 1042156004366 G2 box; other site 1042156004367 G3 box; other site 1042156004368 Switch II region; other site 1042156004369 G4 box; other site 1042156004370 G5 box; other site 1042156004371 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 1042156004372 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 1042156004373 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 1042156004374 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1042156004375 homodimer interface [polypeptide binding]; other site 1042156004376 substrate-cofactor binding pocket; other site 1042156004377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156004378 catalytic residue [active] 1042156004379 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 1042156004380 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1042156004381 4Fe-4S binding domain; Region: Fer4; cl02805 1042156004382 4Fe-4S binding domain; Region: Fer4; cl02805 1042156004383 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1042156004384 CPxP motif; other site 1042156004385 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1042156004386 catalytic residues [active] 1042156004387 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1042156004388 thiS-thiF/thiG interaction site; other site 1042156004389 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1042156004390 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 1042156004391 ATP binding site [chemical binding]; other site 1042156004392 substrate interface [chemical binding]; other site 1042156004393 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 1042156004394 MPN+ (JAMM) motif; other site 1042156004395 Zinc-binding site [ion binding]; other site 1042156004396 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042156004397 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042156004398 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1042156004399 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1042156004400 putative active site [active] 1042156004401 putative dimer interface [polypeptide binding]; other site 1042156004402 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1042156004403 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1042156004404 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 1042156004405 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1042156004406 metal-binding site [ion binding] 1042156004407 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 1042156004408 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1042156004409 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1042156004410 Walker A/P-loop; other site 1042156004411 ATP binding site [chemical binding]; other site 1042156004412 Q-loop/lid; other site 1042156004413 ABC transporter signature motif; other site 1042156004414 Walker B; other site 1042156004415 D-loop; other site 1042156004416 H-loop/switch region; other site 1042156004417 Predicted transcriptional regulators [Transcription]; Region: COG1725 1042156004418 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042156004419 DNA-binding site [nucleotide binding]; DNA binding site 1042156004420 4-alpha-glucanotransferase; Provisional; Region: PRK14508 1042156004421 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156004422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156004423 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156004424 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1042156004425 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1042156004426 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1042156004427 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1042156004428 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 1042156004429 Ligand Binding Site [chemical binding]; other site 1042156004430 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042156004431 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1042156004432 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1042156004433 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156004434 FeS/SAM binding site; other site 1042156004435 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1042156004436 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156004437 FeS/SAM binding site; other site 1042156004438 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 1042156004439 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042156004440 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042156004441 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1042156004442 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042156004443 Walker A/P-loop; other site 1042156004444 ATP binding site [chemical binding]; other site 1042156004445 Q-loop/lid; other site 1042156004446 ABC transporter signature motif; other site 1042156004447 Walker B; other site 1042156004448 D-loop; other site 1042156004449 H-loop/switch region; other site 1042156004450 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1042156004451 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1042156004452 FtsX-like permease family; Region: FtsX; pfam02687 1042156004453 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042156004454 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042156004455 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1042156004456 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1042156004457 active site 1042156004458 nucleophile elbow; other site 1042156004459 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1042156004460 Ferritin-like domain; Region: Ferritin; pfam00210 1042156004461 ferroxidase diiron center [ion binding]; other site 1042156004462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156004463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156004464 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156004465 dimerization interface [polypeptide binding]; other site 1042156004466 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1042156004467 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1042156004468 intersubunit interface [polypeptide binding]; other site 1042156004469 active site 1042156004470 zinc binding site [ion binding]; other site 1042156004471 Na+ binding site [ion binding]; other site 1042156004472 HRDC domain; Region: HRDC; pfam00570 1042156004473 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1042156004474 active site 1042156004475 SAM binding site [chemical binding]; other site 1042156004476 homodimer interface [polypeptide binding]; other site 1042156004477 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1042156004478 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042156004479 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1042156004480 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1042156004481 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 1042156004482 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156004483 FeS/SAM binding site; other site 1042156004484 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1042156004485 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 1042156004486 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 1042156004487 G1 box; other site 1042156004488 GTP/Mg2+ binding site [chemical binding]; other site 1042156004489 Switch I region; other site 1042156004490 G2 box; other site 1042156004491 Switch II region; other site 1042156004492 G3 box; other site 1042156004493 G4 box; other site 1042156004494 G5 box; other site 1042156004495 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1042156004496 Acylphosphatase; Region: Acylphosphatase; pfam00708 1042156004497 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 1042156004498 HypF finger; Region: zf-HYPF; pfam07503 1042156004499 HypF finger; Region: zf-HYPF; pfam07503 1042156004500 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1042156004501 HupF/HypC family; Region: HupF_HypC; pfam01455 1042156004502 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 1042156004503 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1042156004504 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 1042156004505 dimerization interface [polypeptide binding]; other site 1042156004506 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1042156004507 ATP binding site [chemical binding]; other site 1042156004508 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1042156004509 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 1042156004510 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1042156004511 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1042156004512 NlpC/P60 family; Region: NLPC_P60; cl17555 1042156004513 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1042156004514 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1042156004515 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1042156004516 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1042156004517 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1042156004518 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 1042156004519 DltD central region; Region: DltD_M; pfam04918 1042156004520 DltD C-terminal region; Region: DltD_C; pfam04914 1042156004521 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1042156004522 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 1042156004523 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1042156004524 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1042156004525 acyl-activating enzyme (AAE) consensus motif; other site 1042156004526 AMP binding site [chemical binding]; other site 1042156004527 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042156004528 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156004529 active site 1042156004530 phosphorylation site [posttranslational modification] 1042156004531 intermolecular recognition site; other site 1042156004532 dimerization interface [polypeptide binding]; other site 1042156004533 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042156004534 DNA binding site [nucleotide binding] 1042156004535 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1042156004536 dimerization interface [polypeptide binding]; other site 1042156004537 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042156004538 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1042156004539 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 1042156004540 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1042156004541 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156004542 putative substrate translocation pore; other site 1042156004543 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 1042156004544 hypothetical protein; Provisional; Region: PRK13663 1042156004545 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 1042156004546 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1042156004547 active site 1042156004548 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1042156004549 Interdomain contacts; other site 1042156004550 Cytokine receptor motif; other site 1042156004551 Bacterial SH3 domain; Region: SH3_3; pfam08239 1042156004552 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1042156004553 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1042156004554 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042156004555 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042156004556 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042156004557 active site 2 [active] 1042156004558 active site 1 [active] 1042156004559 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1042156004560 active site 2 [active] 1042156004561 active site 1 [active] 1042156004562 putative transposase OrfB; Reviewed; Region: PHA02517 1042156004563 HTH-like domain; Region: HTH_21; pfam13276 1042156004564 Integrase core domain; Region: rve; pfam00665 1042156004565 Integrase core domain; Region: rve_2; pfam13333 1042156004566 Transposase; Region: HTH_Tnp_1; cl17663 1042156004567 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042156004568 Transposase; Region: HTH_Tnp_1; pfam01527 1042156004569 Helix-turn-helix domain; Region: HTH_28; pfam13518 1042156004570 Winged helix-turn helix; Region: HTH_29; pfam13551 1042156004571 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1042156004572 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 1042156004573 metal binding site [ion binding]; metal-binding site 1042156004574 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1042156004575 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1042156004576 AP (apurinic/apyrimidinic) site pocket; other site 1042156004577 DNA interaction; other site 1042156004578 Metal-binding active site; metal-binding site 1042156004579 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1042156004580 intersubunit interface [polypeptide binding]; other site 1042156004581 active site 1042156004582 zinc binding site [ion binding]; other site 1042156004583 Na+ binding site [ion binding]; other site 1042156004584 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1042156004585 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1042156004586 ATP binding site [chemical binding]; other site 1042156004587 substrate binding site [chemical binding]; other site 1042156004588 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1042156004589 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1042156004590 DNA binding site [nucleotide binding] 1042156004591 domain linker motif; other site 1042156004592 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1042156004593 dimerization interface [polypeptide binding]; other site 1042156004594 ligand binding site [chemical binding]; other site 1042156004595 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1042156004596 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042156004597 NAD(P) binding site [chemical binding]; other site 1042156004598 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1042156004599 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1042156004600 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1042156004601 Metal-binding active site; metal-binding site 1042156004602 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1042156004603 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156004604 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 1042156004605 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042156004606 NAD binding site [chemical binding]; other site 1042156004607 catalytic residues [active] 1042156004608 substrate binding site [chemical binding]; other site 1042156004609 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1042156004610 Divergent AAA domain; Region: AAA_4; pfam04326 1042156004611 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1042156004612 MarR family; Region: MarR_2; pfam12802 1042156004613 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 1042156004614 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1042156004615 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042156004616 ATP binding site [chemical binding]; other site 1042156004617 putative Mg++ binding site [ion binding]; other site 1042156004618 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1042156004619 C-terminal putative phospholipase D-like domain of uncharacterized prokaryotic HKD family nucleases fused to DEAD/DEAH box helicases; Region: PLDc_C_DEXD_like; cd09126 1042156004620 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1042156004621 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042156004622 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 1042156004623 antitoxin MqsA for MqsR toxin; Region: MqsA; cl15819 1042156004624 toxin interface [polypeptide binding]; other site 1042156004625 Zn binding site [ion binding]; other site 1042156004626 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042156004627 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 1042156004628 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156004629 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156004630 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042156004631 dimerization interface [polypeptide binding]; other site 1042156004632 substrate binding pocket [chemical binding]; other site 1042156004633 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042156004634 FAD binding domain; Region: FAD_binding_4; pfam01565 1042156004635 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1042156004636 Cysteine-rich domain; Region: CCG; pfam02754 1042156004637 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042156004638 FAD binding domain; Region: FAD_binding_4; pfam01565 1042156004639 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042156004640 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1042156004641 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156004642 putative substrate translocation pore; other site 1042156004643 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1042156004644 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1042156004645 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1042156004646 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1042156004647 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156004648 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156004649 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042156004650 dimerization interface [polypeptide binding]; other site 1042156004651 substrate binding pocket [chemical binding]; other site 1042156004652 MFS/sugar transport protein; Region: MFS_2; pfam13347 1042156004653 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1042156004654 Uncharacterized conserved protein [Function unknown]; Region: COG5276 1042156004655 LVIVD repeat; Region: LVIVD; pfam08309 1042156004656 AAA domain; Region: AAA_14; pfam13173 1042156004657 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1042156004658 Nuclease-related domain; Region: NERD; pfam08378 1042156004659 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156004660 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156004661 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156004662 dimerization interface [polypeptide binding]; other site 1042156004663 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1042156004664 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 1042156004665 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1042156004666 TPP-binding site [chemical binding]; other site 1042156004667 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042156004668 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042156004669 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1042156004670 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042156004671 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156004672 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156004673 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156004674 dimerization interface [polypeptide binding]; other site 1042156004675 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042156004676 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 1042156004677 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1042156004678 4Fe-4S binding domain; Region: Fer4; cl02805 1042156004679 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156004680 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1042156004681 putative oxidoreductase; Provisional; Region: PRK08275 1042156004682 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1042156004683 butyrate kinase; Provisional; Region: PRK03011 1042156004684 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1042156004685 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156004686 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1042156004687 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042156004688 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042156004689 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042156004690 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042156004691 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042156004692 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042156004693 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1042156004694 putative efflux protein, MATE family; Region: matE; TIGR00797 1042156004695 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 1042156004696 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1042156004697 dimerization interface [polypeptide binding]; other site 1042156004698 active site 1042156004699 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1042156004700 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1042156004701 folate binding site [chemical binding]; other site 1042156004702 NADP+ binding site [chemical binding]; other site 1042156004703 Predicted permeases [General function prediction only]; Region: COG0679 1042156004704 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 1042156004705 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042156004706 PYR/PP interface [polypeptide binding]; other site 1042156004707 dimer interface [polypeptide binding]; other site 1042156004708 TPP binding site [chemical binding]; other site 1042156004709 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042156004710 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1042156004711 TPP-binding site [chemical binding]; other site 1042156004712 dimer interface [polypeptide binding]; other site 1042156004713 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1042156004714 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1042156004715 putative valine binding site [chemical binding]; other site 1042156004716 dimer interface [polypeptide binding]; other site 1042156004717 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1042156004718 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1042156004719 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1042156004720 homodimer interface [polypeptide binding]; other site 1042156004721 substrate-cofactor binding pocket; other site 1042156004722 catalytic residue [active] 1042156004723 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1042156004724 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1042156004725 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1042156004726 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 1042156004727 PAP2 superfamily; Region: PAP2; pfam01569 1042156004728 active site 1042156004729 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1042156004730 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1042156004731 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1042156004732 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1042156004733 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042156004734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156004735 homodimer interface [polypeptide binding]; other site 1042156004736 catalytic residue [active] 1042156004737 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 1042156004738 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1042156004739 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042156004740 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042156004741 DNA-binding site [nucleotide binding]; DNA binding site 1042156004742 FCD domain; Region: FCD; pfam07729 1042156004743 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 1042156004744 glutamate racemase; Provisional; Region: PRK00865 1042156004745 trigger factor; Region: tig; TIGR00115 1042156004746 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1042156004747 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1042156004748 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1042156004749 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1042156004750 putative dimer interface [polypeptide binding]; other site 1042156004751 putative anticodon binding site; other site 1042156004752 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1042156004753 homodimer interface [polypeptide binding]; other site 1042156004754 motif 1; other site 1042156004755 motif 2; other site 1042156004756 active site 1042156004757 motif 3; other site 1042156004758 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1042156004759 DHH family; Region: DHH; pfam01368 1042156004760 DHHA1 domain; Region: DHHA1; pfam02272 1042156004761 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1042156004762 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156004763 S-adenosylmethionine binding site [chemical binding]; other site 1042156004764 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1042156004765 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 1042156004766 dimerization interface [polypeptide binding]; other site 1042156004767 domain crossover interface; other site 1042156004768 redox-dependent activation switch; other site 1042156004769 Domain of unknown function DUF21; Region: DUF21; pfam01595 1042156004770 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1042156004771 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1042156004772 Transporter associated domain; Region: CorC_HlyC; pfam03471 1042156004773 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 1042156004774 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 1042156004775 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156004776 FeS/SAM binding site; other site 1042156004777 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1042156004778 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1042156004779 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1042156004780 Protein export membrane protein; Region: SecD_SecF; pfam02355 1042156004781 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1042156004782 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 1042156004783 dimer interface [polypeptide binding]; other site 1042156004784 active site 1042156004785 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1042156004786 folate binding site [chemical binding]; other site 1042156004787 seryl-tRNA synthetase; Provisional; Region: PRK05431 1042156004788 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1042156004789 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1042156004790 motif 1; other site 1042156004791 dimer interface [polypeptide binding]; other site 1042156004792 active site 1042156004793 motif 2; other site 1042156004794 motif 3; other site 1042156004795 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 1042156004796 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1042156004797 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1042156004798 catalytic site [active] 1042156004799 subunit interface [polypeptide binding]; other site 1042156004800 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1042156004801 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042156004802 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1042156004803 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1042156004804 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042156004805 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042156004806 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1042156004807 IMP binding site; other site 1042156004808 dimer interface [polypeptide binding]; other site 1042156004809 interdomain contacts; other site 1042156004810 partial ornithine binding site; other site 1042156004811 putative acyltransferase; Provisional; Region: PRK05790 1042156004812 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1042156004813 dimer interface [polypeptide binding]; other site 1042156004814 active site 1042156004815 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 1042156004816 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042156004817 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042156004818 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042156004819 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156004820 active site 1042156004821 phosphorylation site [posttranslational modification] 1042156004822 intermolecular recognition site; other site 1042156004823 dimerization interface [polypeptide binding]; other site 1042156004824 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042156004825 DNA binding site [nucleotide binding] 1042156004826 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1042156004827 HAMP domain; Region: HAMP; pfam00672 1042156004828 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042156004829 dimer interface [polypeptide binding]; other site 1042156004830 phosphorylation site [posttranslational modification] 1042156004831 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156004832 ATP binding site [chemical binding]; other site 1042156004833 Mg2+ binding site [ion binding]; other site 1042156004834 G-X-G motif; other site 1042156004835 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1042156004836 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156004837 Walker A motif; other site 1042156004838 ATP binding site [chemical binding]; other site 1042156004839 Walker B motif; other site 1042156004840 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1042156004841 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042156004842 Beta-Casp domain; Region: Beta-Casp; smart01027 1042156004843 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1042156004844 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1042156004845 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1042156004846 NodB motif; other site 1042156004847 active site 1042156004848 catalytic site [active] 1042156004849 Zn binding site [ion binding]; other site 1042156004850 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042156004851 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042156004852 active site 1042156004853 metal binding site [ion binding]; metal-binding site 1042156004854 putative hydrolase; Validated; Region: PRK09248 1042156004855 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 1042156004856 active site 1042156004857 Trp repressor protein; Region: Trp_repressor; cl17266 1042156004858 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1042156004859 Part of AAA domain; Region: AAA_19; pfam13245 1042156004860 Family description; Region: UvrD_C_2; pfam13538 1042156004861 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1042156004862 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1042156004863 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156004864 S-adenosylmethionine binding site [chemical binding]; other site 1042156004865 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 1042156004866 CAAX protease self-immunity; Region: Abi; pfam02517 1042156004867 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042156004868 WHG domain; Region: WHG; pfam13305 1042156004869 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1042156004870 AAA domain; Region: AAA_14; pfam13173 1042156004871 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042156004872 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042156004873 dimerization interface [polypeptide binding]; other site 1042156004874 putative DNA binding site [nucleotide binding]; other site 1042156004875 putative Zn2+ binding site [ion binding]; other site 1042156004876 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1042156004877 arsenical-resistance protein; Region: acr3; TIGR00832 1042156004878 Nucleoside Triphosphate Pyrophosphohydrolase EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u6; cd11543 1042156004879 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156004880 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156004881 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156004882 dimerization interface [polypeptide binding]; other site 1042156004883 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156004884 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042156004885 putative substrate translocation pore; other site 1042156004886 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1042156004887 classical (c) SDRs; Region: SDR_c; cd05233 1042156004888 NAD(P) binding site [chemical binding]; other site 1042156004889 active site 1042156004890 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 1042156004891 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 1042156004892 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 1042156004893 maltose O-acetyltransferase; Provisional; Region: PRK10092 1042156004894 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1042156004895 active site 1042156004896 substrate binding site [chemical binding]; other site 1042156004897 trimer interface [polypeptide binding]; other site 1042156004898 CoA binding site [chemical binding]; other site 1042156004899 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042156004900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156004901 active site 1042156004902 phosphorylation site [posttranslational modification] 1042156004903 intermolecular recognition site; other site 1042156004904 dimerization interface [polypeptide binding]; other site 1042156004905 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042156004906 DNA binding site [nucleotide binding] 1042156004907 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042156004908 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042156004909 dimer interface [polypeptide binding]; other site 1042156004910 phosphorylation site [posttranslational modification] 1042156004911 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156004912 ATP binding site [chemical binding]; other site 1042156004913 Mg2+ binding site [ion binding]; other site 1042156004914 G-X-G motif; other site 1042156004915 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1042156004916 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042156004917 Walker A/P-loop; other site 1042156004918 ATP binding site [chemical binding]; other site 1042156004919 Q-loop/lid; other site 1042156004920 ABC transporter signature motif; other site 1042156004921 Walker B; other site 1042156004922 D-loop; other site 1042156004923 H-loop/switch region; other site 1042156004924 FtsX-like permease family; Region: FtsX; pfam02687 1042156004925 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1042156004926 FtsX-like permease family; Region: FtsX; pfam02687 1042156004927 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 1042156004928 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042156004929 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 1042156004930 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1042156004931 AAA domain; Region: AAA_14; pfam13173 1042156004932 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1042156004933 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1042156004934 PAS fold; Region: PAS_4; pfam08448 1042156004935 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042156004936 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042156004937 DNA binding residues [nucleotide binding] 1042156004938 Cupin domain; Region: Cupin_2; pfam07883 1042156004939 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042156004940 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156004941 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156004942 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1042156004943 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1042156004944 active site 1042156004945 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156004946 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156004947 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156004948 dimerization interface [polypeptide binding]; other site 1042156004949 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1042156004950 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042156004951 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042156004952 Walker A/P-loop; other site 1042156004953 ATP binding site [chemical binding]; other site 1042156004954 Q-loop/lid; other site 1042156004955 ABC transporter signature motif; other site 1042156004956 Walker B; other site 1042156004957 D-loop; other site 1042156004958 H-loop/switch region; other site 1042156004959 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1042156004960 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042156004961 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1042156004962 Walker A/P-loop; other site 1042156004963 ATP binding site [chemical binding]; other site 1042156004964 Q-loop/lid; other site 1042156004965 ABC transporter signature motif; other site 1042156004966 Walker B; other site 1042156004967 D-loop; other site 1042156004968 H-loop/switch region; other site 1042156004969 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1042156004970 thiS-thiF/thiG interaction site; other site 1042156004971 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 1042156004972 ThiS interaction site; other site 1042156004973 putative active site [active] 1042156004974 tetramer interface [polypeptide binding]; other site 1042156004975 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 1042156004976 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156004977 FeS/SAM binding site; other site 1042156004978 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1042156004979 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1042156004980 thiamine phosphate binding site [chemical binding]; other site 1042156004981 active site 1042156004982 pyrophosphate binding site [ion binding]; other site 1042156004983 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1042156004984 L-lactate permease; Region: Lactate_perm; cl00701 1042156004985 TraX protein; Region: TraX; cl05434 1042156004986 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 1042156004987 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 1042156004988 G1 box; other site 1042156004989 putative GEF interaction site [polypeptide binding]; other site 1042156004990 GTP/Mg2+ binding site [chemical binding]; other site 1042156004991 Switch I region; other site 1042156004992 G2 box; other site 1042156004993 G3 box; other site 1042156004994 Switch II region; other site 1042156004995 G4 box; other site 1042156004996 G5 box; other site 1042156004997 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 1042156004998 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 1042156004999 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 1042156005000 YacP-like NYN domain; Region: NYN_YacP; pfam05991 1042156005001 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 1042156005002 dimer interface [polypeptide binding]; other site 1042156005003 Citrate synthase; Region: Citrate_synt; pfam00285 1042156005004 active site 1042156005005 citrylCoA binding site [chemical binding]; other site 1042156005006 oxalacetate/citrate binding site [chemical binding]; other site 1042156005007 coenzyme A binding site [chemical binding]; other site 1042156005008 catalytic triad [active] 1042156005009 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042156005010 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156005011 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156005012 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042156005013 dimerization interface [polypeptide binding]; other site 1042156005014 substrate binding pocket [chemical binding]; other site 1042156005015 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 1042156005016 intersubunit interface [polypeptide binding]; other site 1042156005017 active site 1042156005018 Zn2+ binding site [ion binding]; other site 1042156005019 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042156005020 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 1042156005021 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1042156005022 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 1042156005023 Type II/IV secretion system protein; Region: T2SE; pfam00437 1042156005024 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1042156005025 Walker A motif; other site 1042156005026 ATP binding site [chemical binding]; other site 1042156005027 Walker B motif; other site 1042156005028 Right handed beta helix region; Region: Beta_helix; pfam13229 1042156005029 Right handed beta helix region; Region: Beta_helix; pfam13229 1042156005030 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1042156005031 amidase catalytic site [active] 1042156005032 Zn binding residues [ion binding]; other site 1042156005033 substrate binding site [chemical binding]; other site 1042156005034 HEAT repeats; Region: HEAT_2; pfam13646 1042156005035 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156005036 S-adenosylmethionine binding site [chemical binding]; other site 1042156005037 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1042156005038 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042156005039 substrate binding pocket [chemical binding]; other site 1042156005040 membrane-bound complex binding site; other site 1042156005041 hinge residues; other site 1042156005042 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042156005043 dimer interface [polypeptide binding]; other site 1042156005044 conserved gate region; other site 1042156005045 putative PBP binding loops; other site 1042156005046 ABC-ATPase subunit interface; other site 1042156005047 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042156005048 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042156005049 Walker A/P-loop; other site 1042156005050 ATP binding site [chemical binding]; other site 1042156005051 Q-loop/lid; other site 1042156005052 ABC transporter signature motif; other site 1042156005053 Walker B; other site 1042156005054 D-loop; other site 1042156005055 H-loop/switch region; other site 1042156005056 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1042156005057 active site 1042156005058 dimer interface [polypeptide binding]; other site 1042156005059 metal binding site [ion binding]; metal-binding site 1042156005060 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1042156005061 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1042156005062 metal binding site [ion binding]; metal-binding site 1042156005063 dimer interface [polypeptide binding]; other site 1042156005064 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1042156005065 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1042156005066 metal binding site [ion binding]; metal-binding site 1042156005067 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1042156005068 active site 1042156005069 catalytic residues [active] 1042156005070 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1042156005071 Preprotein translocase SecG subunit; Region: SecG; cl09123 1042156005072 ribonuclease R; Region: RNase_R; TIGR02063 1042156005073 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1042156005074 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1042156005075 RNB domain; Region: RNB; pfam00773 1042156005076 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1042156005077 RNA binding site [nucleotide binding]; other site 1042156005078 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 1042156005079 SmpB-tmRNA interface; other site 1042156005080 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1042156005081 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1042156005082 Active Sites [active] 1042156005083 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1042156005084 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 1042156005085 putative ATP binding site [chemical binding]; other site 1042156005086 putative substrate interface [chemical binding]; other site 1042156005087 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1042156005088 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042156005089 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 1042156005090 Herpesvirus latent membrane protein 1 (LMP1); Region: Herpes_LMP1; pfam05297 1042156005091 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 1042156005092 Rrf2 family protein; Region: rrf2_super; TIGR00738 1042156005093 Transcriptional regulator; Region: Rrf2; pfam02082 1042156005094 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1042156005095 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1042156005096 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1042156005097 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1042156005098 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1042156005099 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1042156005100 putative substrate binding site [chemical binding]; other site 1042156005101 putative ATP binding site [chemical binding]; other site 1042156005102 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1042156005103 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1042156005104 active site 1042156005105 phosphorylation site [posttranslational modification] 1042156005106 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1042156005107 active site 1042156005108 P-loop; other site 1042156005109 phosphorylation site [posttranslational modification] 1042156005110 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1042156005111 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1042156005112 dimerization domain swap beta strand [polypeptide binding]; other site 1042156005113 regulatory protein interface [polypeptide binding]; other site 1042156005114 active site 1042156005115 regulatory phosphorylation site [posttranslational modification]; other site 1042156005116 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1042156005117 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1042156005118 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1042156005119 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1042156005120 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1042156005121 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1042156005122 Cl binding site [ion binding]; other site 1042156005123 oligomer interface [polypeptide binding]; other site 1042156005124 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1042156005125 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 1042156005126 putative NAD(P) binding site [chemical binding]; other site 1042156005127 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156005128 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042156005129 putative substrate translocation pore; other site 1042156005130 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042156005131 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1042156005132 active site 1042156005133 metal binding site [ion binding]; metal-binding site 1042156005134 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1042156005135 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1042156005136 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1042156005137 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1042156005138 dimerization interface [polypeptide binding]; other site 1042156005139 Histidine kinase; Region: His_kinase; pfam06580 1042156005140 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156005141 ATP binding site [chemical binding]; other site 1042156005142 Mg2+ binding site [ion binding]; other site 1042156005143 G-X-G motif; other site 1042156005144 Response regulator receiver domain; Region: Response_reg; pfam00072 1042156005145 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156005146 active site 1042156005147 phosphorylation site [posttranslational modification] 1042156005148 intermolecular recognition site; other site 1042156005149 dimerization interface [polypeptide binding]; other site 1042156005150 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156005151 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042156005152 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156005153 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1042156005154 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1042156005155 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1042156005156 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1042156005157 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1042156005158 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1042156005159 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1042156005160 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1042156005161 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1042156005162 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 1042156005163 protein-rRNA interface [nucleotide binding]; other site 1042156005164 putative translocon binding site; other site 1042156005165 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1042156005166 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 1042156005167 G-X-X-G motif; other site 1042156005168 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1042156005169 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 1042156005170 23S rRNA interface [nucleotide binding]; other site 1042156005171 5S rRNA interface [nucleotide binding]; other site 1042156005172 putative antibiotic binding site [chemical binding]; other site 1042156005173 L25 interface [polypeptide binding]; other site 1042156005174 L27 interface [polypeptide binding]; other site 1042156005175 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 1042156005176 putative translocon interaction site; other site 1042156005177 23S rRNA interface [nucleotide binding]; other site 1042156005178 signal recognition particle (SRP54) interaction site; other site 1042156005179 L23 interface [polypeptide binding]; other site 1042156005180 trigger factor interaction site; other site 1042156005181 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1042156005182 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1042156005183 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1042156005184 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1042156005185 RNA binding site [nucleotide binding]; other site 1042156005186 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1042156005187 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1042156005188 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1042156005189 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1042156005190 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1042156005191 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1042156005192 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1042156005193 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1042156005194 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 1042156005195 5S rRNA interface [nucleotide binding]; other site 1042156005196 L27 interface [polypeptide binding]; other site 1042156005197 23S rRNA interface [nucleotide binding]; other site 1042156005198 L5 interface [polypeptide binding]; other site 1042156005199 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1042156005200 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1042156005201 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1042156005202 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 1042156005203 23S rRNA binding site [nucleotide binding]; other site 1042156005204 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1042156005205 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1042156005206 SecY translocase; Region: SecY; pfam00344 1042156005207 adenylate kinase; Reviewed; Region: adk; PRK00279 1042156005208 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 1042156005209 AMP-binding site [chemical binding]; other site 1042156005210 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1042156005211 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 1042156005212 active site 1042156005213 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 1042156005214 RNA binding site [nucleotide binding]; other site 1042156005215 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 1042156005216 rRNA binding site [nucleotide binding]; other site 1042156005217 predicted 30S ribosome binding site; other site 1042156005218 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1042156005219 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1042156005220 30S ribosomal protein S11; Validated; Region: PRK05309 1042156005221 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1042156005222 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1042156005223 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042156005224 RNA binding surface [nucleotide binding]; other site 1042156005225 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1042156005226 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1042156005227 alphaNTD homodimer interface [polypeptide binding]; other site 1042156005228 alphaNTD - beta interaction site [polypeptide binding]; other site 1042156005229 alphaNTD - beta' interaction site [polypeptide binding]; other site 1042156005230 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1042156005231 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1042156005232 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1042156005233 MutS domain III; Region: MutS_III; pfam05192 1042156005234 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1042156005235 Walker A/P-loop; other site 1042156005236 ATP binding site [chemical binding]; other site 1042156005237 Q-loop/lid; other site 1042156005238 ABC transporter signature motif; other site 1042156005239 Walker B; other site 1042156005240 D-loop; other site 1042156005241 H-loop/switch region; other site 1042156005242 Cdc37 N terminal kinase binding; Region: CDC37_N; cl03951 1042156005243 Smr domain; Region: Smr; pfam01713 1042156005244 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042156005245 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156005246 active site 1042156005247 phosphorylation site [posttranslational modification] 1042156005248 intermolecular recognition site; other site 1042156005249 dimerization interface [polypeptide binding]; other site 1042156005250 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042156005251 DNA binding site [nucleotide binding] 1042156005252 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042156005253 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1042156005254 dimerization interface [polypeptide binding]; other site 1042156005255 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042156005256 dimer interface [polypeptide binding]; other site 1042156005257 phosphorylation site [posttranslational modification] 1042156005258 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156005259 ATP binding site [chemical binding]; other site 1042156005260 Mg2+ binding site [ion binding]; other site 1042156005261 G-X-G motif; other site 1042156005262 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1042156005263 active site 1042156005264 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1042156005265 substrate binding site [chemical binding]; other site 1042156005266 metal binding site [ion binding]; metal-binding site 1042156005267 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 1042156005268 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 1042156005269 generic binding surface I; other site 1042156005270 generic binding surface II; other site 1042156005271 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1042156005272 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042156005273 Zn2+ binding site [ion binding]; other site 1042156005274 Mg2+ binding site [ion binding]; other site 1042156005275 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1042156005276 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 1042156005277 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156005278 S-adenosylmethionine binding site [chemical binding]; other site 1042156005279 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 1042156005280 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042156005281 MULE transposase domain; Region: MULE; pfam10551 1042156005282 Transposase; Region: HTH_Tnp_1; pfam01527 1042156005283 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042156005284 putative transposase OrfB; Reviewed; Region: PHA02517 1042156005285 HTH-like domain; Region: HTH_21; pfam13276 1042156005286 Integrase core domain; Region: rve; pfam00665 1042156005287 Integrase core domain; Region: rve_2; pfam13333 1042156005288 putative transposase OrfB; Reviewed; Region: PHA02517 1042156005289 HTH-like domain; Region: HTH_21; pfam13276 1042156005290 Integrase core domain; Region: rve; pfam00665 1042156005291 Integrase core domain; Region: rve_2; pfam13333 1042156005292 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 1042156005293 WYL domain; Region: WYL; pfam13280 1042156005294 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1042156005295 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 1042156005296 non-specific DNA binding site [nucleotide binding]; other site 1042156005297 salt bridge; other site 1042156005298 sequence-specific DNA binding site [nucleotide binding]; other site 1042156005299 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 1042156005300 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 1042156005301 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1042156005302 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1042156005303 Fic family protein [Function unknown]; Region: COG3177 1042156005304 Fic/DOC family; Region: Fic; pfam02661 1042156005305 Adenosine deaminase z-alpha domain; Region: z-alpha; cl02659 1042156005306 TIGR02687 family protein; Region: TIGR02687 1042156005307 PglZ domain; Region: PglZ; pfam08665 1042156005308 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 1042156005309 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 1042156005310 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 1042156005311 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1042156005312 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1042156005313 putative ADP-ribose binding site [chemical binding]; other site 1042156005314 putative active site [active] 1042156005315 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 1042156005316 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 1042156005317 Mrr N-terminal domain; Region: Mrr_N; pfam14338 1042156005318 Restriction endonuclease; Region: Mrr_cat; pfam04471 1042156005319 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1042156005320 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1042156005321 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1042156005322 Predicted transcriptional regulator [Transcription]; Region: COG1959 1042156005323 Transcriptional regulator; Region: Rrf2; pfam02082 1042156005324 Transcriptional regulator; Region: Rrf2; cl17282 1042156005325 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1042156005326 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156005327 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042156005328 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156005329 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 1042156005330 ADP-ribose binding site [chemical binding]; other site 1042156005331 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 1042156005332 KCNQ voltage-gated potassium channel; Region: KCNQ_channel; pfam03520 1042156005333 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042156005334 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1042156005335 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042156005336 Transposase; Region: HTH_Tnp_1; cl17663 1042156005337 HTH-like domain; Region: HTH_21; pfam13276 1042156005338 Integrase core domain; Region: rve; pfam00665 1042156005339 Integrase core domain; Region: rve_3; pfam13683 1042156005340 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1042156005341 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156005342 non-specific DNA binding site [nucleotide binding]; other site 1042156005343 salt bridge; other site 1042156005344 sequence-specific DNA binding site [nucleotide binding]; other site 1042156005345 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1042156005346 Protein of unknown function DUF262; Region: DUF262; pfam03235 1042156005347 Uncharacterized conserved protein [Function unknown]; Region: COG3472 1042156005348 AIPR protein; Region: AIPR; pfam10592 1042156005349 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042156005350 MULE transposase domain; Region: MULE; pfam10551 1042156005351 Family description; Region: ACT_7; pfam13840 1042156005352 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1042156005353 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042156005354 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1042156005355 FMN binding site [chemical binding]; other site 1042156005356 dimer interface [polypeptide binding]; other site 1042156005357 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1042156005358 dimer interface [polypeptide binding]; other site 1042156005359 Predicted transcriptional regulator [Transcription]; Region: COG1959 1042156005360 Transcriptional regulator; Region: Rrf2; pfam02082 1042156005361 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042156005362 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1042156005363 putative NAD(P) binding site [chemical binding]; other site 1042156005364 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 1042156005365 AzlC protein; Region: AzlC; cl00570 1042156005366 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156005367 sequence-specific DNA binding site [nucleotide binding]; other site 1042156005368 salt bridge; other site 1042156005369 Cupin domain; Region: Cupin_2; pfam07883 1042156005370 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 1042156005371 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1042156005372 putative ADP-ribose binding site [chemical binding]; other site 1042156005373 putative active site [active] 1042156005374 PA14 domain; Region: PA14; cl08459 1042156005375 Cna protein B-type domain; Region: Cna_B; pfam05738 1042156005376 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156005377 domain interaction interfaces [polypeptide binding]; other site 1042156005378 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1042156005379 Cna protein B-type domain; Region: Cna_B; pfam05738 1042156005380 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1042156005381 active site 1042156005382 catalytic site [active] 1042156005383 Predicted transcriptional regulators [Transcription]; Region: COG1733 1042156005384 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1042156005385 dimerization interface [polypeptide binding]; other site 1042156005386 putative Zn2+ binding site [ion binding]; other site 1042156005387 putative DNA binding site [nucleotide binding]; other site 1042156005388 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 1042156005389 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 1042156005390 Na binding site [ion binding]; other site 1042156005391 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042156005392 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156005393 non-specific DNA binding site [nucleotide binding]; other site 1042156005394 salt bridge; other site 1042156005395 sequence-specific DNA binding site [nucleotide binding]; other site 1042156005396 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 1042156005397 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156005398 Walker A motif; other site 1042156005399 ATP binding site [chemical binding]; other site 1042156005400 Walker B motif; other site 1042156005401 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042156005402 DNA binding residues [nucleotide binding] 1042156005403 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042156005404 dimerization interface [polypeptide binding]; other site 1042156005405 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 1042156005406 amphipathic channel; other site 1042156005407 Asn-Pro-Ala signature motifs; other site 1042156005408 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042156005409 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1042156005410 active site 1042156005411 metal binding site [ion binding]; metal-binding site 1042156005412 Predicted membrane protein [Function unknown]; Region: COG2364 1042156005413 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1042156005414 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1042156005415 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 1042156005416 active site 1042156005417 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1042156005418 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1042156005419 active site 1042156005420 FMN binding site [chemical binding]; other site 1042156005421 substrate binding site [chemical binding]; other site 1042156005422 putative catalytic residue [active] 1042156005423 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042156005424 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1042156005425 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1042156005426 spermidine synthase; Provisional; Region: PRK03612 1042156005427 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156005428 S-adenosylmethionine binding site [chemical binding]; other site 1042156005429 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1042156005430 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1042156005431 polyphosphate kinase; Provisional; Region: PRK05443 1042156005432 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1042156005433 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1042156005434 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1042156005435 putative active site [active] 1042156005436 catalytic site [active] 1042156005437 Catalytic C-terminal domain, second repeat, of uncharacterized prokaryotic polyphosphate kinases; Region: PLDc_PPK1_C2_unchar; cd09169 1042156005438 putative domain interface [polypeptide binding]; other site 1042156005439 putative active site [active] 1042156005440 catalytic site [active] 1042156005441 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1042156005442 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1042156005443 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1042156005444 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042156005445 Coenzyme A binding pocket [chemical binding]; other site 1042156005446 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 1042156005447 Listeria/Bacterioides repeat; Region: List_Bact_rpt; TIGR02543 1042156005448 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1042156005449 Listeria/Bacterioides repeat; Region: List_Bact_rpt; TIGR02543 1042156005450 Listeria/Bacterioides repeat; Region: List_Bact_rpt; TIGR02543 1042156005451 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1042156005452 Ligand binding site; other site 1042156005453 metal-binding site 1042156005454 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 1042156005455 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1042156005456 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042156005457 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042156005458 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042156005459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1042156005460 YheO-like PAS domain; Region: PAS_6; pfam08348 1042156005461 HTH domain; Region: HTH_22; pfam13309 1042156005462 phenylhydantoinase; Validated; Region: PRK08323 1042156005463 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1042156005464 tetramer interface [polypeptide binding]; other site 1042156005465 active site 1042156005466 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 1042156005467 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1042156005468 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1042156005469 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1042156005470 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1042156005471 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1042156005472 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042156005473 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1042156005474 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156005475 S-adenosylmethionine binding site [chemical binding]; other site 1042156005476 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042156005477 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042156005478 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1042156005479 active site 1042156005480 metal binding site [ion binding]; metal-binding site 1042156005481 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1042156005482 LytTr DNA-binding domain; Region: LytTR; smart00850 1042156005483 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1042156005484 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042156005485 dimer interface [polypeptide binding]; other site 1042156005486 conserved gate region; other site 1042156005487 putative PBP binding loops; other site 1042156005488 ABC-ATPase subunit interface; other site 1042156005489 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1042156005490 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042156005491 dimer interface [polypeptide binding]; other site 1042156005492 conserved gate region; other site 1042156005493 putative PBP binding loops; other site 1042156005494 ABC-ATPase subunit interface; other site 1042156005495 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1042156005496 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1042156005497 DNA binding site [nucleotide binding] 1042156005498 domain linker motif; other site 1042156005499 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1042156005500 ligand binding site [chemical binding]; other site 1042156005501 dimerization interface [polypeptide binding]; other site 1042156005502 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1042156005503 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1042156005504 Walker A/P-loop; other site 1042156005505 ATP binding site [chemical binding]; other site 1042156005506 Q-loop/lid; other site 1042156005507 ABC transporter signature motif; other site 1042156005508 Walker B; other site 1042156005509 D-loop; other site 1042156005510 H-loop/switch region; other site 1042156005511 TOBE domain; Region: TOBE_2; pfam08402 1042156005512 4-alpha-glucanotransferase; Provisional; Region: PRK14508 1042156005513 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042156005514 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042156005515 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156005516 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1042156005517 FeS/SAM binding site; other site 1042156005518 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 1042156005519 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1042156005520 active site 1042156005521 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1042156005522 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042156005523 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1042156005524 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 1042156005525 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1042156005526 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 1042156005527 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1042156005528 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1042156005529 Walker A/P-loop; other site 1042156005530 ATP binding site [chemical binding]; other site 1042156005531 Q-loop/lid; other site 1042156005532 ABC transporter signature motif; other site 1042156005533 Walker B; other site 1042156005534 D-loop; other site 1042156005535 H-loop/switch region; other site 1042156005536 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1042156005537 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042156005538 Isochorismatase family; Region: Isochorismatase; pfam00857 1042156005539 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1042156005540 catalytic triad [active] 1042156005541 conserved cis-peptide bond; other site 1042156005542 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1042156005543 ABC1 family; Region: ABC1; cl17513 1042156005544 Uncharacterized conserved protein [Function unknown]; Region: COG3937 1042156005545 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 1042156005546 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1042156005547 nudix motif; other site 1042156005548 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156005549 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156005550 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1042156005551 dimerization interface [polypeptide binding]; other site 1042156005552 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1042156005553 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 1042156005554 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1042156005555 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 1042156005556 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 1042156005557 FAD binding pocket [chemical binding]; other site 1042156005558 FAD binding motif [chemical binding]; other site 1042156005559 phosphate binding motif [ion binding]; other site 1042156005560 beta-alpha-beta structure motif; other site 1042156005561 NAD binding pocket [chemical binding]; other site 1042156005562 Iron coordination center [ion binding]; other site 1042156005563 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 1042156005564 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1042156005565 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156005566 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 1042156005567 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 1042156005568 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1042156005569 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 1042156005570 NAD binding site [chemical binding]; other site 1042156005571 dimer interface [polypeptide binding]; other site 1042156005572 substrate binding site [chemical binding]; other site 1042156005573 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1042156005574 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1042156005575 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1042156005576 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1042156005577 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1042156005578 HflX GTPase family; Region: HflX; cd01878 1042156005579 G1 box; other site 1042156005580 GTP/Mg2+ binding site [chemical binding]; other site 1042156005581 Switch I region; other site 1042156005582 G2 box; other site 1042156005583 G3 box; other site 1042156005584 Switch II region; other site 1042156005585 G4 box; other site 1042156005586 G5 box; other site 1042156005587 SnoaL-like domain; Region: SnoaL_3; pfam13474 1042156005588 LytTr DNA-binding domain; Region: LytTR; smart00850 1042156005589 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1042156005590 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1042156005591 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1042156005592 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1042156005593 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1042156005594 trimer interface [polypeptide binding]; other site 1042156005595 putative metal binding site [ion binding]; other site 1042156005596 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1042156005597 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1042156005598 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1042156005599 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1042156005600 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042156005601 motif II; other site 1042156005602 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1042156005603 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1042156005604 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1042156005605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 1042156005606 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1042156005607 metal ion-dependent adhesion site (MIDAS); other site 1042156005608 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156005609 Walker A motif; other site 1042156005610 ATP binding site [chemical binding]; other site 1042156005611 Walker B motif; other site 1042156005612 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1042156005613 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1042156005614 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 1042156005615 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 1042156005616 Ligand Binding Site [chemical binding]; other site 1042156005617 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1042156005618 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1042156005619 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1042156005620 zinc binding site [ion binding]; other site 1042156005621 putative ligand binding site [chemical binding]; other site 1042156005622 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042156005623 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1042156005624 TM-ABC transporter signature motif; other site 1042156005625 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1042156005626 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042156005627 Walker A/P-loop; other site 1042156005628 ATP binding site [chemical binding]; other site 1042156005629 Q-loop/lid; other site 1042156005630 ABC transporter signature motif; other site 1042156005631 Walker B; other site 1042156005632 D-loop; other site 1042156005633 H-loop/switch region; other site 1042156005634 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1042156005635 EDD domain protein, DegV family; Region: DegV; TIGR00762 1042156005636 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1042156005637 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1042156005638 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1042156005639 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1042156005640 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1042156005641 nucleotide binding region [chemical binding]; other site 1042156005642 ATP-binding site [chemical binding]; other site 1042156005643 SEC-C motif; Region: SEC-C; pfam02810 1042156005644 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1042156005645 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1042156005646 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042156005647 catalytic residue [active] 1042156005648 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1042156005649 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1042156005650 trimerization site [polypeptide binding]; other site 1042156005651 active site 1042156005652 Response regulator receiver domain; Region: Response_reg; pfam00072 1042156005653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156005654 active site 1042156005655 phosphorylation site [posttranslational modification] 1042156005656 intermolecular recognition site; other site 1042156005657 dimerization interface [polypeptide binding]; other site 1042156005658 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042156005659 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156005660 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1042156005661 Histidine kinase; Region: His_kinase; pfam06580 1042156005662 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156005663 ATP binding site [chemical binding]; other site 1042156005664 Mg2+ binding site [ion binding]; other site 1042156005665 G-X-G motif; other site 1042156005666 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1042156005667 Somatotropin/prolactin hormone family; Region: growth_hormone_like; cl07831 1042156005668 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1042156005669 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1042156005670 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 1042156005671 putative active site [active] 1042156005672 catalytic site [active] 1042156005673 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 1042156005674 putative active site [active] 1042156005675 catalytic site [active] 1042156005676 Prephenate dehydratase; Region: PDT; pfam00800 1042156005677 aspartate aminotransferase; Provisional; Region: PRK05764 1042156005678 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042156005679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156005680 homodimer interface [polypeptide binding]; other site 1042156005681 catalytic residue [active] 1042156005682 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1042156005683 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 1042156005684 active site 1042156005685 catalytic site [active] 1042156005686 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 1042156005687 homotrimer interaction site [polypeptide binding]; other site 1042156005688 zinc binding site [ion binding]; other site 1042156005689 CDP-binding sites; other site 1042156005690 Phosphotransferase enzyme family; Region: APH; pfam01636 1042156005691 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1042156005692 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1042156005693 active site 1042156005694 HIGH motif; other site 1042156005695 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1042156005696 KMSKS motif; other site 1042156005697 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1042156005698 tRNA binding surface [nucleotide binding]; other site 1042156005699 anticodon binding site; other site 1042156005700 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 1042156005701 active site 1042156005702 metal binding site [ion binding]; metal-binding site 1042156005703 dimerization interface [polypeptide binding]; other site 1042156005704 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1042156005705 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1042156005706 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1042156005707 RNA polymerase sigma-H factor; Region: spore_sigH; TIGR02859 1042156005708 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042156005709 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 1042156005710 DNA binding residues [nucleotide binding] 1042156005711 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1042156005712 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1042156005713 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1042156005714 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1042156005715 Interdomain contacts; other site 1042156005716 Cytokine receptor motif; other site 1042156005717 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1042156005718 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042156005719 active site 1042156005720 motif I; other site 1042156005721 motif II; other site 1042156005722 CAAX protease self-immunity; Region: Abi; pfam02517 1042156005723 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 1042156005724 catalytic residues [active] 1042156005725 dimer interface [polypeptide binding]; other site 1042156005726 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1042156005727 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1042156005728 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1042156005729 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 1042156005730 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 1042156005731 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 1042156005732 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1042156005733 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 1042156005734 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 1042156005735 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 1042156005736 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09755 1042156005737 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1042156005738 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1042156005739 active site 1042156005740 catalytic site [active] 1042156005741 substrate binding site [chemical binding]; other site 1042156005742 putative transposase OrfB; Reviewed; Region: PHA02517 1042156005743 HTH-like domain; Region: HTH_21; pfam13276 1042156005744 Integrase core domain; Region: rve; pfam00665 1042156005745 Integrase core domain; Region: rve_3; pfam13683 1042156005746 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042156005747 Transposase; Region: HTH_Tnp_1; cl17663 1042156005748 Integrase core domain; Region: rve; pfam00665 1042156005749 Integrase core domain; Region: rve_3; pfam13683 1042156005750 HTH-like domain; Region: HTH_21; pfam13276 1042156005751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042156005752 Transposase; Region: HTH_Tnp_1; cl17663 1042156005753 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1042156005754 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156005755 FeS/SAM binding site; other site 1042156005756 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156005757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156005758 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042156005759 dimerization interface [polypeptide binding]; other site 1042156005760 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156005761 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1042156005762 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1042156005763 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1042156005764 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1042156005765 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1042156005766 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 1042156005767 iron binding site [ion binding]; other site 1042156005768 Rubrerythrin [Energy production and conversion]; Region: COG1592 1042156005769 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 1042156005770 binuclear metal center [ion binding]; other site 1042156005771 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 1042156005772 iron binding site [ion binding]; other site 1042156005773 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 1042156005774 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 1042156005775 active site 1042156005776 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 1042156005777 active site 1042156005778 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1042156005779 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1042156005780 active site 1042156005781 FMN binding site [chemical binding]; other site 1042156005782 substrate binding site [chemical binding]; other site 1042156005783 putative catalytic residue [active] 1042156005784 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042156005785 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042156005786 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042156005787 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1042156005788 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1042156005789 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1042156005790 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1042156005791 dimer interface [polypeptide binding]; other site 1042156005792 active site 1042156005793 catalytic residue [active] 1042156005794 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1042156005795 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042156005796 motif II; other site 1042156005797 Nitroreductase family; Region: Nitroreductase; pfam00881 1042156005798 FMN binding site [chemical binding]; other site 1042156005799 dimer interface [polypeptide binding]; other site 1042156005800 aspartate kinase; Reviewed; Region: PRK09034 1042156005801 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1042156005802 nucleotide binding site [chemical binding]; other site 1042156005803 substrate binding site [chemical binding]; other site 1042156005804 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 1042156005805 allosteric regulatory residue; other site 1042156005806 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 1042156005807 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1042156005808 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1042156005809 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1042156005810 active site 1042156005811 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1042156005812 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1042156005813 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1042156005814 pseudouridine synthase; Region: TIGR00093 1042156005815 active site 1042156005816 uracil binding [chemical binding]; other site 1042156005817 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1042156005818 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042156005819 ABC transporter; Region: ABC_tran_2; pfam12848 1042156005820 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042156005821 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1042156005822 Prephenate dehydratase; Region: PDT; pfam00800 1042156005823 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 1042156005824 putative L-Phe binding site [chemical binding]; other site 1042156005825 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156005826 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156005827 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1042156005828 dimerization interface [polypeptide binding]; other site 1042156005829 Uncharacterized conserved protein [Function unknown]; Region: COG5276 1042156005830 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1042156005831 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1042156005832 active site 1042156005833 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042156005834 substrate binding site [chemical binding]; other site 1042156005835 catalytic residues [active] 1042156005836 dimer interface [polypeptide binding]; other site 1042156005837 Penicillinase repressor; Region: Pencillinase_R; cl17580 1042156005838 2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family; Region: PorC_KorC; TIGR02175 1042156005839 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1042156005840 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1042156005841 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 1042156005842 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1042156005843 dimer interface [polypeptide binding]; other site 1042156005844 PYR/PP interface [polypeptide binding]; other site 1042156005845 TPP binding site [chemical binding]; other site 1042156005846 substrate binding site [chemical binding]; other site 1042156005847 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042156005848 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 1042156005849 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 1042156005850 TPP-binding site [chemical binding]; other site 1042156005851 putative dimer interface [polypeptide binding]; other site 1042156005852 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156005853 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156005854 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156005855 dimerization interface [polypeptide binding]; other site 1042156005856 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 1042156005857 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042156005858 catalytic loop [active] 1042156005859 iron binding site [ion binding]; other site 1042156005860 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1042156005861 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042156005862 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1042156005863 [2Fe-2S] cluster binding site [ion binding]; other site 1042156005864 dimer interface [polypeptide binding]; other site 1042156005865 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1042156005866 SLBB domain; Region: SLBB; pfam10531 1042156005867 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1042156005868 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156005869 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1042156005870 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1042156005871 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1042156005872 putative dimer interface [polypeptide binding]; other site 1042156005873 [2Fe-2S] cluster binding site [ion binding]; other site 1042156005874 trigger factor; Provisional; Region: tig; PRK01490 1042156005875 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1042156005876 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1042156005877 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1042156005878 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1042156005879 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 1042156005880 active site 1042156005881 DNA polymerase I; Provisional; Region: PRK05755 1042156005882 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1042156005883 active site 1042156005884 metal binding site 1 [ion binding]; metal-binding site 1042156005885 putative 5' ssDNA interaction site; other site 1042156005886 metal binding site 3; metal-binding site 1042156005887 metal binding site 2 [ion binding]; metal-binding site 1042156005888 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1042156005889 putative DNA binding site [nucleotide binding]; other site 1042156005890 putative metal binding site [ion binding]; other site 1042156005891 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 1042156005892 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1042156005893 active site 1042156005894 DNA binding site [nucleotide binding] 1042156005895 catalytic site [active] 1042156005896 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1042156005897 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 1042156005898 CoA-binding site [chemical binding]; other site 1042156005899 ATP-binding [chemical binding]; other site 1042156005900 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1042156005901 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 1042156005902 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1042156005903 IMP cyclohydrolase-like protein; Region: IMP_cyclohyd; cl01330 1042156005904 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 1042156005905 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 1042156005906 pyruvate carboxylase; Reviewed; Region: PRK12999 1042156005907 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042156005908 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1042156005909 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1042156005910 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1042156005911 active site 1042156005912 catalytic residues [active] 1042156005913 metal binding site [ion binding]; metal-binding site 1042156005914 homodimer binding site [polypeptide binding]; other site 1042156005915 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1042156005916 carboxyltransferase (CT) interaction site; other site 1042156005917 biotinylation site [posttranslational modification]; other site 1042156005918 hypothetical protein; Provisional; Region: PRK13670 1042156005919 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 1042156005920 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1042156005921 propionate/acetate kinase; Provisional; Region: PRK12379 1042156005922 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1042156005923 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 1042156005924 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 1042156005925 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1042156005926 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1042156005927 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1042156005928 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 1042156005929 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 1042156005930 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042156005931 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 1042156005932 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042156005933 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 1042156005934 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042156005935 putative phosphate acyltransferase; Provisional; Region: PRK05331 1042156005936 acyl carrier protein; Provisional; Region: acpP; PRK00982 1042156005937 ribonuclease III; Reviewed; Region: rnc; PRK00102 1042156005938 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 1042156005939 dimerization interface [polypeptide binding]; other site 1042156005940 active site 1042156005941 metal binding site [ion binding]; metal-binding site 1042156005942 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 1042156005943 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1042156005944 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1042156005945 Walker A/P-loop; other site 1042156005946 ATP binding site [chemical binding]; other site 1042156005947 Q-loop/lid; other site 1042156005948 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1042156005949 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1042156005950 ABC transporter signature motif; other site 1042156005951 Walker B; other site 1042156005952 D-loop; other site 1042156005953 H-loop/switch region; other site 1042156005954 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1042156005955 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1042156005956 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1042156005957 P loop; other site 1042156005958 GTP binding site [chemical binding]; other site 1042156005959 threonine dehydratase; Provisional; Region: PRK08198 1042156005960 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1042156005961 tetramer interface [polypeptide binding]; other site 1042156005962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156005963 catalytic residue [active] 1042156005964 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 1042156005965 putative DNA-binding protein; Validated; Region: PRK00118 1042156005966 signal recognition particle protein; Provisional; Region: PRK10867 1042156005967 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1042156005968 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1042156005969 P loop; other site 1042156005970 GTP binding site [chemical binding]; other site 1042156005971 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1042156005972 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1042156005973 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1042156005974 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 1042156005975 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1042156005976 RimM N-terminal domain; Region: RimM; pfam01782 1042156005977 PRC-barrel domain; Region: PRC; pfam05239 1042156005978 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1042156005979 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1042156005980 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 1042156005981 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1042156005982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 1042156005983 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 1042156005984 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 1042156005985 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1042156005986 acyl-activating enzyme (AAE) consensus motif; other site 1042156005987 active site 1042156005988 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1042156005989 thioester reductase domain; Region: Thioester-redct; TIGR01746 1042156005990 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 1042156005991 putative NAD(P) binding site [chemical binding]; other site 1042156005992 active site 1042156005993 putative substrate binding site [chemical binding]; other site 1042156005994 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 1042156005995 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1042156005996 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1042156005997 Catalytic site [active] 1042156005998 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 1042156005999 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1042156006000 GTP/Mg2+ binding site [chemical binding]; other site 1042156006001 G4 box; other site 1042156006002 G5 box; other site 1042156006003 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1042156006004 G1 box; other site 1042156006005 G1 box; other site 1042156006006 GTP/Mg2+ binding site [chemical binding]; other site 1042156006007 Switch I region; other site 1042156006008 G2 box; other site 1042156006009 G2 box; other site 1042156006010 Switch I region; other site 1042156006011 G3 box; other site 1042156006012 G3 box; other site 1042156006013 Switch II region; other site 1042156006014 Switch II region; other site 1042156006015 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1042156006016 RNA/DNA hybrid binding site [nucleotide binding]; other site 1042156006017 active site 1042156006018 hypothetical protein; Reviewed; Region: PRK12497 1042156006019 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1042156006020 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1042156006021 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1042156006022 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042156006023 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042156006024 ABC transporter; Region: ABC_tran_2; pfam12848 1042156006025 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042156006026 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1042156006027 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1042156006028 dimer interface [polypeptide binding]; other site 1042156006029 PYR/PP interface [polypeptide binding]; other site 1042156006030 TPP binding site [chemical binding]; other site 1042156006031 substrate binding site [chemical binding]; other site 1042156006032 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1042156006033 Domain of unknown function; Region: EKR; pfam10371 1042156006034 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1042156006035 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1042156006036 TPP-binding site [chemical binding]; other site 1042156006037 dimer interface [polypeptide binding]; other site 1042156006038 PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal)...; Region: PDZ_signaling; cd00992 1042156006039 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 1042156006040 Protein of unknown function (DUF512); Region: DUF512; pfam04459 1042156006041 GTP-binding protein Der; Reviewed; Region: PRK00093 1042156006042 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1042156006043 G1 box; other site 1042156006044 GTP/Mg2+ binding site [chemical binding]; other site 1042156006045 Switch I region; other site 1042156006046 G2 box; other site 1042156006047 Switch II region; other site 1042156006048 G3 box; other site 1042156006049 G4 box; other site 1042156006050 G5 box; other site 1042156006051 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1042156006052 G1 box; other site 1042156006053 GTP/Mg2+ binding site [chemical binding]; other site 1042156006054 Switch I region; other site 1042156006055 G2 box; other site 1042156006056 G3 box; other site 1042156006057 Switch II region; other site 1042156006058 G4 box; other site 1042156006059 G5 box; other site 1042156006060 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 1042156006061 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1042156006062 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1042156006063 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1042156006064 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1042156006065 trimer interface [polypeptide binding]; other site 1042156006066 active site 1042156006067 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1042156006068 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 1042156006069 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1042156006070 DRTGG domain; Region: DRTGG; pfam07085 1042156006071 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1042156006072 DHHA2 domain; Region: DHHA2; pfam02833 1042156006073 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1042156006074 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 1042156006075 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1042156006076 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1042156006077 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1042156006078 RNA binding site [nucleotide binding]; other site 1042156006079 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1042156006080 Walker A motif; other site 1042156006081 ATP binding site [chemical binding]; other site 1042156006082 Walker B motif; other site 1042156006083 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1042156006084 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 1042156006085 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1042156006086 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156006087 S-adenosylmethionine binding site [chemical binding]; other site 1042156006088 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1042156006089 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1042156006090 RF-1 domain; Region: RF-1; pfam00472 1042156006091 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042156006092 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1042156006093 active site 1042156006094 motif I; other site 1042156006095 motif II; other site 1042156006096 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1042156006097 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1042156006098 Ligand Binding Site [chemical binding]; other site 1042156006099 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 1042156006100 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1042156006101 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 1042156006102 putative active site [active] 1042156006103 catalytic site [active] 1042156006104 putative metal binding site [ion binding]; other site 1042156006105 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1042156006106 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1042156006107 Probable transposase; Region: OrfB_IS605; pfam01385 1042156006108 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1042156006109 CHAP domain; Region: CHAP; cl17642 1042156006110 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1042156006111 Leucine rich repeat; Region: LRR_8; pfam13855 1042156006112 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1042156006113 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1042156006114 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1042156006115 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1042156006116 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1042156006117 TolA protein; Region: tolA_full; TIGR02794 1042156006118 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042156006119 MULE transposase domain; Region: MULE; pfam10551 1042156006120 putative transposase OrfB; Reviewed; Region: PHA02517 1042156006121 HTH-like domain; Region: HTH_21; pfam13276 1042156006122 Integrase core domain; Region: rve; pfam00665 1042156006123 Integrase core domain; Region: rve_3; cl15866 1042156006124 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042156006125 Helix-turn-helix domain; Region: HTH_28; pfam13518 1042156006126 Transposase; Region: HTH_Tnp_1; cl17663 1042156006127 Helix-turn-helix domain; Region: HTH_28; pfam13518 1042156006128 Winged helix-turn helix; Region: HTH_29; pfam13551 1042156006129 Homeodomain-like domain; Region: HTH_32; pfam13565 1042156006130 YibE/F-like protein; Region: YibE_F; pfam07907 1042156006131 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1042156006132 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 1042156006133 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1042156006134 active site 1042156006135 metal binding site [ion binding]; metal-binding site 1042156006136 Nitroreductase family; Region: Nitroreductase; pfam00881 1042156006137 FMN binding site [chemical binding]; other site 1042156006138 dimer interface [polypeptide binding]; other site 1042156006139 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1042156006140 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1042156006141 putative RNA binding site [nucleotide binding]; other site 1042156006142 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156006143 S-adenosylmethionine binding site [chemical binding]; other site 1042156006144 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1042156006145 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 1042156006146 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156006147 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156006148 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1042156006149 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 1042156006150 NAD synthetase; Reviewed; Region: nadE; PRK02628 1042156006151 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1042156006152 multimer interface [polypeptide binding]; other site 1042156006153 active site 1042156006154 catalytic triad [active] 1042156006155 protein interface 1 [polypeptide binding]; other site 1042156006156 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 1042156006157 homodimer interface [polypeptide binding]; other site 1042156006158 NAD binding pocket [chemical binding]; other site 1042156006159 ATP binding pocket [chemical binding]; other site 1042156006160 Mg binding site [ion binding]; other site 1042156006161 active-site loop [active] 1042156006162 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156006163 domain interaction interfaces [polypeptide binding]; other site 1042156006164 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156006165 domain interaction interfaces [polypeptide binding]; other site 1042156006166 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 1042156006167 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 1042156006168 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1042156006169 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1042156006170 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1042156006171 Part of AAA domain; Region: AAA_19; pfam13245 1042156006172 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1042156006173 Maf-like protein; Reviewed; Region: PRK00078 1042156006174 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 1042156006175 active site 1042156006176 dimer interface [polypeptide binding]; other site 1042156006177 heat shock protein 90; Provisional; Region: PRK05218 1042156006178 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156006179 ATP binding site [chemical binding]; other site 1042156006180 Mg2+ binding site [ion binding]; other site 1042156006181 G-X-G motif; other site 1042156006182 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042156006183 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1042156006184 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1042156006185 nucleotide binding site [chemical binding]; other site 1042156006186 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1042156006187 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 1042156006188 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 1042156006189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 1042156006190 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 1042156006191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 1042156006192 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1042156006193 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042156006194 active site 1042156006195 HIGH motif; other site 1042156006196 nucleotide binding site [chemical binding]; other site 1042156006197 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042156006198 active site 1042156006199 KMSKS motif; other site 1042156006200 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1042156006201 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1042156006202 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1042156006203 putative dimer interface [polypeptide binding]; other site 1042156006204 [2Fe-2S] cluster binding site [ion binding]; other site 1042156006205 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1042156006206 dimer interface [polypeptide binding]; other site 1042156006207 [2Fe-2S] cluster binding site [ion binding]; other site 1042156006208 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1042156006209 SLBB domain; Region: SLBB; pfam10531 1042156006210 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1042156006211 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156006212 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042156006213 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1042156006214 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042156006215 catalytic loop [active] 1042156006216 iron binding site [ion binding]; other site 1042156006217 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1042156006218 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 1042156006219 [4Fe-4S] binding site [ion binding]; other site 1042156006220 molybdopterin cofactor binding site; other site 1042156006221 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 1042156006222 molybdopterin cofactor binding site; other site 1042156006223 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 1042156006224 argininosuccinate synthase; Provisional; Region: PRK13820 1042156006225 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1042156006226 ANP binding site [chemical binding]; other site 1042156006227 Substrate Binding Site II [chemical binding]; other site 1042156006228 Substrate Binding Site I [chemical binding]; other site 1042156006229 putative acetyltransferase; Provisional; Region: PRK03624 1042156006230 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042156006231 Coenzyme A binding pocket [chemical binding]; other site 1042156006232 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 1042156006233 heterotetramer interface [polypeptide binding]; other site 1042156006234 active site pocket [active] 1042156006235 cleavage site 1042156006236 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1042156006237 feedback inhibition sensing region; other site 1042156006238 homohexameric interface [polypeptide binding]; other site 1042156006239 nucleotide binding site [chemical binding]; other site 1042156006240 N-acetyl-L-glutamate binding site [chemical binding]; other site 1042156006241 acetylornithine aminotransferase; Provisional; Region: PRK02627 1042156006242 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1042156006243 inhibitor-cofactor binding pocket; inhibition site 1042156006244 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156006245 catalytic residue [active] 1042156006246 SLBB domain; Region: SLBB; pfam10531 1042156006247 comEA protein; Region: comE; TIGR01259 1042156006248 Helix-hairpin-helix motif; Region: HHH; pfam00633 1042156006249 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042156006250 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156006251 active site 1042156006252 phosphorylation site [posttranslational modification] 1042156006253 intermolecular recognition site; other site 1042156006254 dimerization interface [polypeptide binding]; other site 1042156006255 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1042156006256 DNA binding site [nucleotide binding] 1042156006257 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1042156006258 HAMP domain; Region: HAMP; pfam00672 1042156006259 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1042156006260 dimer interface [polypeptide binding]; other site 1042156006261 phosphorylation site [posttranslational modification] 1042156006262 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156006263 ATP binding site [chemical binding]; other site 1042156006264 Mg2+ binding site [ion binding]; other site 1042156006265 G-X-G motif; other site 1042156006266 Sporulation and spore germination; Region: Germane; pfam10646 1042156006267 Sporulation and spore germination; Region: Germane; pfam10646 1042156006268 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1042156006269 Competence protein; Region: Competence; pfam03772 1042156006270 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042156006271 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1042156006272 EamA-like transporter family; Region: EamA; pfam00892 1042156006273 EamA-like transporter family; Region: EamA; pfam00892 1042156006274 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1042156006275 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1042156006276 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1042156006277 GTP-binding protein LepA; Provisional; Region: PRK05433 1042156006278 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1042156006279 G1 box; other site 1042156006280 putative GEF interaction site [polypeptide binding]; other site 1042156006281 GTP/Mg2+ binding site [chemical binding]; other site 1042156006282 Switch I region; other site 1042156006283 G2 box; other site 1042156006284 G3 box; other site 1042156006285 Switch II region; other site 1042156006286 G4 box; other site 1042156006287 G5 box; other site 1042156006288 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 1042156006289 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 1042156006290 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1042156006291 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 1042156006292 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156006293 FeS/SAM binding site; other site 1042156006294 HemN C-terminal domain; Region: HemN_C; pfam06969 1042156006295 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1042156006296 HTH domain; Region: HTH_11; cl17392 1042156006297 Region: GrpE; pfam01025 1042156006298 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 1042156006299 dimer interface [polypeptide binding]; other site 1042156006300 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1042156006301 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1042156006302 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1042156006303 nucleotide binding site [chemical binding]; other site 1042156006304 NEF interaction site [polypeptide binding]; other site 1042156006305 SBD interface [polypeptide binding]; other site 1042156006306 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 1042156006307 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1042156006308 HSP70 interaction site [polypeptide binding]; other site 1042156006309 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1042156006310 substrate binding site [polypeptide binding]; other site 1042156006311 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1042156006312 Zn binding sites [ion binding]; other site 1042156006313 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1042156006314 dimer interface [polypeptide binding]; other site 1042156006315 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1042156006316 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156006317 S-adenosylmethionine binding site [chemical binding]; other site 1042156006318 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1042156006319 RNA methyltransferase, RsmE family; Region: TIGR00046 1042156006320 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1042156006321 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1042156006322 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042156006323 catalytic residue [active] 1042156006324 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1042156006325 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1042156006326 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1042156006327 Ligand Binding Site [chemical binding]; other site 1042156006328 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1042156006329 regulatory protein interface [polypeptide binding]; other site 1042156006330 regulatory phosphorylation site [posttranslational modification]; other site 1042156006331 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1042156006332 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1042156006333 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156006334 FeS/SAM binding site; other site 1042156006335 hypothetical protein; Provisional; Region: PRK05473 1042156006336 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1042156006337 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1042156006338 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042156006339 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1042156006340 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1042156006341 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156006342 S-adenosylmethionine binding site [chemical binding]; other site 1042156006343 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1042156006344 Peptidase family U32; Region: Peptidase_U32; pfam01136 1042156006345 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1042156006346 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1042156006347 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1042156006348 Tetramer interface [polypeptide binding]; other site 1042156006349 active site 1042156006350 FMN-binding site [chemical binding]; other site 1042156006351 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1042156006352 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1042156006353 Preprotein translocase subunit; Region: YajC; pfam02699 1042156006354 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1042156006355 tartrate dehydrogenase; Region: TTC; TIGR02089 1042156006356 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1042156006357 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1042156006358 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 1042156006359 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042156006360 PYR/PP interface [polypeptide binding]; other site 1042156006361 dimer interface [polypeptide binding]; other site 1042156006362 TPP binding site [chemical binding]; other site 1042156006363 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042156006364 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1042156006365 TPP-binding site [chemical binding]; other site 1042156006366 dimer interface [polypeptide binding]; other site 1042156006367 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 1042156006368 homodimer interface [polypeptide binding]; other site 1042156006369 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1042156006370 substrate-cofactor binding pocket; other site 1042156006371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156006372 catalytic residue [active] 1042156006373 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 1042156006374 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1042156006375 putative ligand binding site [chemical binding]; other site 1042156006376 putative NAD binding site [chemical binding]; other site 1042156006377 putative catalytic site [active] 1042156006378 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1042156006379 L-serine binding site [chemical binding]; other site 1042156006380 ACT domain interface; other site 1042156006381 Uncharacterized conserved protein [Function unknown]; Region: COG4198 1042156006382 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 1042156006383 mechanosensitive channel MscS; Provisional; Region: PRK10334 1042156006384 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042156006385 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1042156006386 DNA-binding site [nucleotide binding]; DNA binding site 1042156006387 RNA-binding motif; other site 1042156006388 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 1042156006389 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1042156006390 Peptidase M16C associated; Region: M16C_assoc; pfam08367 1042156006391 GTPase Era; Reviewed; Region: era; PRK00089 1042156006392 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1042156006393 G1 box; other site 1042156006394 GTP/Mg2+ binding site [chemical binding]; other site 1042156006395 Switch I region; other site 1042156006396 G2 box; other site 1042156006397 Switch II region; other site 1042156006398 G3 box; other site 1042156006399 G4 box; other site 1042156006400 G5 box; other site 1042156006401 KH domain; Region: KH_2; pfam07650 1042156006402 Recombination protein O N terminal; Region: RecO_N; pfam11967 1042156006403 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1042156006404 Recombination protein O C terminal; Region: RecO_C; pfam02565 1042156006405 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1042156006406 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1042156006407 motif 1; other site 1042156006408 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 1042156006409 active site 1042156006410 motif 2; other site 1042156006411 motif 3; other site 1042156006412 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 1042156006413 anticodon binding site; other site 1042156006414 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1042156006415 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1042156006416 FtsX-like permease family; Region: FtsX; pfam02687 1042156006417 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1042156006418 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042156006419 Walker A/P-loop; other site 1042156006420 ATP binding site [chemical binding]; other site 1042156006421 Q-loop/lid; other site 1042156006422 ABC transporter signature motif; other site 1042156006423 Walker B; other site 1042156006424 D-loop; other site 1042156006425 H-loop/switch region; other site 1042156006426 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042156006427 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 1042156006428 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1042156006429 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1042156006430 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1042156006431 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1042156006432 glutamine binding [chemical binding]; other site 1042156006433 catalytic triad [active] 1042156006434 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 1042156006435 active site 1042156006436 ribulose/triose binding site [chemical binding]; other site 1042156006437 phosphate binding site [ion binding]; other site 1042156006438 substrate (anthranilate) binding pocket [chemical binding]; other site 1042156006439 product (indole) binding pocket [chemical binding]; other site 1042156006440 bifunctional phosphoribosylanthranilate isomerase/tryptophan synthase subunit beta; Provisional; Region: PRK13803 1042156006441 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 1042156006442 active site 1042156006443 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 1042156006444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156006445 catalytic residue [active] 1042156006446 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 1042156006447 substrate binding site [chemical binding]; other site 1042156006448 active site 1042156006449 catalytic residues [active] 1042156006450 heterodimer interface [polypeptide binding]; other site 1042156006451 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1042156006452 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 1042156006453 Cl- selectivity filter; other site 1042156006454 Cl- binding residues [ion binding]; other site 1042156006455 pore gating glutamate residue; other site 1042156006456 dimer interface [polypeptide binding]; other site 1042156006457 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 1042156006458 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1042156006459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156006460 homodimer interface [polypeptide binding]; other site 1042156006461 catalytic residue [active] 1042156006462 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1042156006463 Uncharacterized conserved protein [Function unknown]; Region: COG5495 1042156006464 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1042156006465 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 1042156006466 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 1042156006467 oligomerization interface [polypeptide binding]; other site 1042156006468 active site 1042156006469 metal binding site [ion binding]; metal-binding site 1042156006470 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1042156006471 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1042156006472 active site 1042156006473 ATP-binding site [chemical binding]; other site 1042156006474 pantoate-binding site; other site 1042156006475 HXXH motif; other site 1042156006476 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1042156006477 tetramerization interface [polypeptide binding]; other site 1042156006478 active site 1042156006479 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1042156006480 Flavoprotein; Region: Flavoprotein; pfam02441 1042156006481 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1042156006482 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1042156006483 Part of AAA domain; Region: AAA_19; pfam13245 1042156006484 Family description; Region: UvrD_C_2; pfam13538 1042156006485 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 1042156006486 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1042156006487 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1042156006488 active site 1042156006489 HIGH motif; other site 1042156006490 dimer interface [polypeptide binding]; other site 1042156006491 KMSKS motif; other site 1042156006492 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1042156006493 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1042156006494 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1042156006495 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1042156006496 DNA protecting protein DprA; Region: dprA; TIGR00732 1042156006497 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1042156006498 DNA topoisomerase I; Validated; Region: PRK05582 1042156006499 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 1042156006500 active site 1042156006501 interdomain interaction site; other site 1042156006502 putative metal-binding site [ion binding]; other site 1042156006503 nucleotide binding site [chemical binding]; other site 1042156006504 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 1042156006505 domain I; other site 1042156006506 DNA binding groove [nucleotide binding] 1042156006507 phosphate binding site [ion binding]; other site 1042156006508 domain II; other site 1042156006509 domain III; other site 1042156006510 nucleotide binding site [chemical binding]; other site 1042156006511 catalytic site [active] 1042156006512 domain IV; other site 1042156006513 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1042156006514 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1042156006515 transcriptional repressor CodY; Validated; Region: PRK04158 1042156006516 CodY GAF-like domain; Region: CodY; pfam06018 1042156006517 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 1042156006518 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 1042156006519 rRNA interaction site [nucleotide binding]; other site 1042156006520 S8 interaction site; other site 1042156006521 putative laminin-1 binding site; other site 1042156006522 elongation factor Ts; Provisional; Region: tsf; PRK09377 1042156006523 UBA/TS-N domain; Region: UBA; pfam00627 1042156006524 Elongation factor TS; Region: EF_TS; pfam00889 1042156006525 Elongation factor TS; Region: EF_TS; pfam00889 1042156006526 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 1042156006527 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1042156006528 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1042156006529 homodimer interface [polypeptide binding]; other site 1042156006530 NADP binding site [chemical binding]; other site 1042156006531 substrate binding site [chemical binding]; other site 1042156006532 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042156006533 active site 1042156006534 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1042156006535 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl17245 1042156006536 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1042156006537 PhoH-like protein; Region: PhoH; pfam02562 1042156006538 metal-binding heat shock protein; Provisional; Region: PRK00016 1042156006539 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1042156006540 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1042156006541 flavoprotein, HI0933 family; Region: TIGR00275 1042156006542 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1042156006543 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042156006544 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1042156006545 MutS domain I; Region: MutS_I; pfam01624 1042156006546 MutS domain II; Region: MutS_II; pfam05188 1042156006547 MutS domain III; Region: MutS_III; pfam05192 1042156006548 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1042156006549 Walker A/P-loop; other site 1042156006550 ATP binding site [chemical binding]; other site 1042156006551 Q-loop/lid; other site 1042156006552 ABC transporter signature motif; other site 1042156006553 Walker B; other site 1042156006554 D-loop; other site 1042156006555 H-loop/switch region; other site 1042156006556 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1042156006557 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156006558 ATP binding site [chemical binding]; other site 1042156006559 Mg2+ binding site [ion binding]; other site 1042156006560 G-X-G motif; other site 1042156006561 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1042156006562 ATP binding site [chemical binding]; other site 1042156006563 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 1042156006564 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1042156006565 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1042156006566 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 1042156006567 Aluminium resistance protein; Region: Alum_res; pfam06838 1042156006568 hypothetical protein; Reviewed; Region: PRK00024 1042156006569 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1042156006570 MPN+ (JAMM) motif; other site 1042156006571 Zinc-binding site [ion binding]; other site 1042156006572 MreB and similar proteins; Region: MreB_like; cd10225 1042156006573 rod shape-determining protein MreB; Provisional; Region: PRK13927 1042156006574 nucleotide binding site [chemical binding]; other site 1042156006575 Mg binding site [ion binding]; other site 1042156006576 putative protofilament interaction site [polypeptide binding]; other site 1042156006577 RodZ interaction site [polypeptide binding]; other site 1042156006578 rod shape-determining protein MreC; Provisional; Region: PRK13922 1042156006579 rod shape-determining protein MreC; Region: MreC; pfam04085 1042156006580 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1042156006581 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1042156006582 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1042156006583 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1042156006584 methylglyoxal synthase; Validated; Region: mgsA; PRK05234 1042156006585 substrate binding site [chemical binding]; other site 1042156006586 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1042156006587 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1042156006588 HlyD family secretion protein; Region: HlyD_2; pfam12700 1042156006589 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1042156006590 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042156006591 catalytic residue [active] 1042156006592 Protein of unknown function (DUF552); Region: DUF552; pfam04472 1042156006593 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1042156006594 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042156006595 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1042156006596 RNA binding surface [nucleotide binding]; other site 1042156006597 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1042156006598 active site 1042156006599 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1042156006600 Sodium Bile acid symporter family; Region: SBF; cl17470 1042156006601 Sodium Bile acid symporter family; Region: SBF; cl17470 1042156006602 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 1042156006603 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1042156006604 active site 1042156006605 Int/Topo IB signature motif; other site 1042156006606 DNA binding site [nucleotide binding] 1042156006607 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 1042156006608 putative active site [active] 1042156006609 dimerization interface [polypeptide binding]; other site 1042156006610 putative tRNAtyr binding site [nucleotide binding]; other site 1042156006611 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 1042156006612 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042156006613 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156006614 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042156006615 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 1042156006616 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1042156006617 substrate binding pocket [chemical binding]; other site 1042156006618 dimer interface [polypeptide binding]; other site 1042156006619 inhibitor binding site; inhibition site 1042156006620 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 1042156006621 FAD binding site [chemical binding]; other site 1042156006622 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1042156006623 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 1042156006624 Potassium binding sites [ion binding]; other site 1042156006625 Cesium cation binding sites [ion binding]; other site 1042156006626 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 1042156006627 Minimal MMP-like domain found in Thermus thermophilus hypothetical protein TTHA0227 and similar proteins; Region: MMP_TTHA0227; cd12953 1042156006628 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 1042156006629 N-acetyltransferase; Region: Acetyltransf_2; cl00949 1042156006630 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1042156006631 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1042156006632 LexA repressor; Validated; Region: PRK00215 1042156006633 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1042156006634 Catalytic site [active] 1042156006635 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042156006636 Zn2+ binding site [ion binding]; other site 1042156006637 Mg2+ binding site [ion binding]; other site 1042156006638 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1042156006639 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1042156006640 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1042156006641 active site 1042156006642 (T/H)XGH motif; other site 1042156006643 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1042156006644 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1042156006645 GTP1/OBG; Region: GTP1_OBG; pfam01018 1042156006646 Obg GTPase; Region: Obg; cd01898 1042156006647 G1 box; other site 1042156006648 GTP/Mg2+ binding site [chemical binding]; other site 1042156006649 Switch I region; other site 1042156006650 G2 box; other site 1042156006651 G3 box; other site 1042156006652 Switch II region; other site 1042156006653 G4 box; other site 1042156006654 G5 box; other site 1042156006655 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1042156006656 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1042156006657 Protein of unknown function (DUF464); Region: DUF464; pfam04327 1042156006658 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1042156006659 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1042156006660 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1042156006661 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1042156006662 homodimer interface [polypeptide binding]; other site 1042156006663 oligonucleotide binding site [chemical binding]; other site 1042156006664 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 1042156006665 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 1042156006666 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 1042156006667 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1042156006668 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1042156006669 putative active site pocket [active] 1042156006670 4-fold oligomerization interface [polypeptide binding]; other site 1042156006671 metal binding residues [ion binding]; metal-binding site 1042156006672 3-fold/trimer interface [polypeptide binding]; other site 1042156006673 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 1042156006674 histidinol dehydrogenase; Region: hisD; TIGR00069 1042156006675 NAD binding site [chemical binding]; other site 1042156006676 dimerization interface [polypeptide binding]; other site 1042156006677 product binding site; other site 1042156006678 substrate binding site [chemical binding]; other site 1042156006679 zinc binding site [ion binding]; other site 1042156006680 catalytic residues [active] 1042156006681 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1042156006682 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1042156006683 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 1042156006684 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1042156006685 dimer interface [polypeptide binding]; other site 1042156006686 motif 1; other site 1042156006687 active site 1042156006688 motif 2; other site 1042156006689 motif 3; other site 1042156006690 Recombination protein U; Region: RecU; pfam03838 1042156006691 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1042156006692 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1042156006693 active site 1042156006694 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1042156006695 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1042156006696 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042156006697 motif II; other site 1042156006698 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1042156006699 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1042156006700 active site 1042156006701 (T/H)XGH motif; other site 1042156006702 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1042156006703 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156006704 S-adenosylmethionine binding site [chemical binding]; other site 1042156006705 Competence-damaged protein; Region: CinA; pfam02464 1042156006706 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1042156006707 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1042156006708 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1042156006709 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156006710 FeS/SAM binding site; other site 1042156006711 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1042156006712 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1042156006713 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 1042156006714 catalytic site [active] 1042156006715 G-X2-G-X-G-K; other site 1042156006716 Domain of unknown function (DUF370); Region: DUF370; cl00898 1042156006717 hypothetical protein; Provisional; Region: PRK11820 1042156006718 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1042156006719 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1042156006720 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1042156006721 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1042156006722 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1042156006723 Y-family of DNA polymerases; Region: PolY; cl12025 1042156006724 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042156006725 ATP binding site [chemical binding]; other site 1042156006726 putative Mg++ binding site [ion binding]; other site 1042156006727 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042156006728 nucleotide binding region [chemical binding]; other site 1042156006729 ATP-binding site [chemical binding]; other site 1042156006730 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1042156006731 DAK2 domain; Region: Dak2; pfam02734 1042156006732 Asp23 family; Region: Asp23; pfam03780 1042156006733 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1042156006734 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; pfam09579 1042156006735 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 1042156006736 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 1042156006737 active site 1042156006738 Ap6A binding site [chemical binding]; other site 1042156006739 nudix motif; other site 1042156006740 metal binding site [ion binding]; metal-binding site 1042156006741 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1042156006742 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1042156006743 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1042156006744 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1042156006745 Peptidase family U32; Region: Peptidase_U32; pfam01136 1042156006746 Collagenase; Region: DUF3656; pfam12392 1042156006747 Peptidase family U32; Region: Peptidase_U32; cl03113 1042156006748 Cell division protein ZapA; Region: ZapA; pfam05164 1042156006749 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1042156006750 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042156006751 Walker A motif; other site 1042156006752 ATP binding site [chemical binding]; other site 1042156006753 Walker B motif; other site 1042156006754 arginine finger; other site 1042156006755 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1042156006756 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1042156006757 RuvA N terminal domain; Region: RuvA_N; pfam01330 1042156006758 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1042156006759 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 1042156006760 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 1042156006761 trimer interface [polypeptide binding]; other site 1042156006762 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 1042156006763 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1042156006764 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156006765 FeS/SAM binding site; other site 1042156006766 TRAM domain; Region: TRAM; pfam01938 1042156006767 Protein of unknown function DUF111; Region: DUF111; pfam01969 1042156006768 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 1042156006769 AIR carboxylase; Region: AIRC; smart01001 1042156006770 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1042156006771 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1042156006772 gamma-glutamyl kinase; Provisional; Region: PRK05429 1042156006773 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 1042156006774 nucleotide binding site [chemical binding]; other site 1042156006775 homotetrameric interface [polypeptide binding]; other site 1042156006776 putative phosphate binding site [ion binding]; other site 1042156006777 putative allosteric binding site; other site 1042156006778 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1042156006779 ApbE family; Region: ApbE; pfam02424 1042156006780 ferredoxin; Provisional; Region: PRK08764 1042156006781 Putative Fe-S cluster; Region: FeS; cl17515 1042156006782 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1042156006783 electron transport complex protein RsxA; Provisional; Region: PRK05151 1042156006784 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1042156006785 FMN-binding domain; Region: FMN_bind; cl01081 1042156006786 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 1042156006787 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1042156006788 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1042156006789 SLBB domain; Region: SLBB; pfam10531 1042156006790 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1042156006791 RNase_H superfamily; Region: RNase_H_2; pfam13482 1042156006792 active site 1042156006793 substrate binding site [chemical binding]; other site 1042156006794 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 1042156006795 LytB protein; Region: LYTB; cl00507 1042156006796 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1042156006797 RNA binding site [nucleotide binding]; other site 1042156006798 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1042156006799 RNA binding site [nucleotide binding]; other site 1042156006800 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 1042156006801 RNA binding site [nucleotide binding]; other site 1042156006802 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 1042156006803 RNA binding site [nucleotide binding]; other site 1042156006804 cytidylate kinase; Provisional; Region: cmk; PRK00023 1042156006805 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 1042156006806 CMP-binding site; other site 1042156006807 The sites determining sugar specificity; other site 1042156006808 flavoprotein, HI0933 family; Region: TIGR00275 1042156006809 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042156006810 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1042156006811 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1042156006812 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1042156006813 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1042156006814 RNase E interface [polypeptide binding]; other site 1042156006815 trimer interface [polypeptide binding]; other site 1042156006816 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1042156006817 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1042156006818 RNase E interface [polypeptide binding]; other site 1042156006819 trimer interface [polypeptide binding]; other site 1042156006820 active site 1042156006821 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 1042156006822 putative nucleic acid binding region [nucleotide binding]; other site 1042156006823 G-X-X-G motif; other site 1042156006824 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 1042156006825 RNA binding site [nucleotide binding]; other site 1042156006826 domain interface; other site 1042156006827 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 1042156006828 16S/18S rRNA binding site [nucleotide binding]; other site 1042156006829 S13e-L30e interaction site [polypeptide binding]; other site 1042156006830 25S rRNA binding site [nucleotide binding]; other site 1042156006831 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1042156006832 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1042156006833 active site 1042156006834 Riboflavin kinase; Region: Flavokinase; pfam01687 1042156006835 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 1042156006836 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1042156006837 RNA binding site [nucleotide binding]; other site 1042156006838 active site 1042156006839 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1042156006840 DHH family; Region: DHH; pfam01368 1042156006841 DHHA1 domain; Region: DHHA1; pfam02272 1042156006842 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1042156006843 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1042156006844 translation initiation factor IF-2; Validated; Region: infB; PRK05306 1042156006845 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1042156006846 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1042156006847 G1 box; other site 1042156006848 putative GEF interaction site [polypeptide binding]; other site 1042156006849 GTP/Mg2+ binding site [chemical binding]; other site 1042156006850 Switch I region; other site 1042156006851 G2 box; other site 1042156006852 G3 box; other site 1042156006853 Switch II region; other site 1042156006854 G4 box; other site 1042156006855 G5 box; other site 1042156006856 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 1042156006857 Translation-initiation factor 2; Region: IF-2; pfam11987 1042156006858 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 1042156006859 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1042156006860 Protein of unknown function (DUF448); Region: DUF448; pfam04296 1042156006861 putative RNA binding cleft [nucleotide binding]; other site 1042156006862 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1042156006863 NusA N-terminal domain; Region: NusA_N; pfam08529 1042156006864 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 1042156006865 RNA binding site [nucleotide binding]; other site 1042156006866 homodimer interface [polypeptide binding]; other site 1042156006867 NusA-like KH domain; Region: KH_5; pfam13184 1042156006868 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 1042156006869 G-X-X-G motif; other site 1042156006870 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1042156006871 Sm and related proteins; Region: Sm_like; cl00259 1042156006872 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1042156006873 putative oligomer interface [polypeptide binding]; other site 1042156006874 putative RNA binding site [nucleotide binding]; other site 1042156006875 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1042156006876 23S rRNA binding site [nucleotide binding]; other site 1042156006877 L21 binding site [polypeptide binding]; other site 1042156006878 L13 binding site [polypeptide binding]; other site 1042156006879 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1042156006880 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1042156006881 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1042156006882 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1042156006883 hypothetical protein; Provisional; Region: PRK07248 1042156006884 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 1042156006885 putative L-Phe binding site [chemical binding]; other site 1042156006886 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1042156006887 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1042156006888 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1042156006889 generic binding surface II; other site 1042156006890 generic binding surface I; other site 1042156006891 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1042156006892 active site 1042156006893 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1042156006894 active site 1042156006895 catalytic site [active] 1042156006896 substrate binding site [chemical binding]; other site 1042156006897 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1042156006898 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1042156006899 GcpE protein; Region: GcpE; pfam04551 1042156006900 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1042156006901 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1042156006902 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1042156006903 active site 1042156006904 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1042156006905 protein binding site [polypeptide binding]; other site 1042156006906 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1042156006907 putative substrate binding region [chemical binding]; other site 1042156006908 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1042156006909 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1042156006910 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1042156006911 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1042156006912 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1042156006913 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1042156006914 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 1042156006915 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1042156006916 catalytic residue [active] 1042156006917 putative FPP diphosphate binding site; other site 1042156006918 putative FPP binding hydrophobic cleft; other site 1042156006919 dimer interface [polypeptide binding]; other site 1042156006920 putative IPP diphosphate binding site; other site 1042156006921 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1042156006922 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 1042156006923 hinge region; other site 1042156006924 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 1042156006925 putative nucleotide binding site [chemical binding]; other site 1042156006926 uridine monophosphate binding site [chemical binding]; other site 1042156006927 homohexameric interface [polypeptide binding]; other site 1042156006928 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1042156006929 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1042156006930 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 1042156006931 Bacitracin resistance protein BacA; Region: BacA; pfam02673 1042156006932 glycogen synthase; Provisional; Region: glgA; PRK00654 1042156006933 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1042156006934 ADP-binding pocket [chemical binding]; other site 1042156006935 homodimer interface [polypeptide binding]; other site 1042156006936 hypothetical protein; Validated; Region: PRK00110 1042156006937 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1042156006938 Domain of unknown function DUF21; Region: DUF21; pfam01595 1042156006939 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1042156006940 Transporter associated domain; Region: CorC_HlyC; pfam03471 1042156006941 alanine racemase; Reviewed; Region: alr; PRK00053 1042156006942 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1042156006943 active site 1042156006944 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042156006945 dimer interface [polypeptide binding]; other site 1042156006946 substrate binding site [chemical binding]; other site 1042156006947 catalytic residues [active] 1042156006948 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 1042156006949 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 1042156006950 putative substrate binding site [chemical binding]; other site 1042156006951 putative ATP binding site [chemical binding]; other site 1042156006952 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1042156006953 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1042156006954 CoA binding domain; Region: CoA_binding; pfam02629 1042156006955 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042156006956 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1042156006957 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042156006958 ABC transporter; Region: ABC_tran_2; pfam12848 1042156006959 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042156006960 isocitrate dehydrogenase; Validated; Region: PRK08299 1042156006961 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042156006962 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042156006963 DNA-binding site [nucleotide binding]; DNA binding site 1042156006964 FCD domain; Region: FCD; pfam07729 1042156006965 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1042156006966 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 1042156006967 active site 1042156006968 catalytic residues [active] 1042156006969 metal binding site [ion binding]; metal-binding site 1042156006970 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 1042156006971 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1042156006972 catalytic loop [active] 1042156006973 iron binding site [ion binding]; other site 1042156006974 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1042156006975 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 1042156006976 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1042156006977 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 1042156006978 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1042156006979 dimer interface [polypeptide binding]; other site 1042156006980 [2Fe-2S] cluster binding site [ion binding]; other site 1042156006981 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1042156006982 SLBB domain; Region: SLBB; pfam10531 1042156006983 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1042156006984 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156006985 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1042156006986 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1042156006987 dimer interface [polypeptide binding]; other site 1042156006988 [2Fe-2S] cluster binding site [ion binding]; other site 1042156006989 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042156006990 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156006991 ATP binding site [chemical binding]; other site 1042156006992 Mg2+ binding site [ion binding]; other site 1042156006993 G-X-G motif; other site 1042156006994 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1042156006995 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1042156006996 putative dimer interface [polypeptide binding]; other site 1042156006997 [2Fe-2S] cluster binding site [ion binding]; other site 1042156006998 DRTGG domain; Region: DRTGG; pfam07085 1042156006999 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1042156007000 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156007001 ATP binding site [chemical binding]; other site 1042156007002 Mg2+ binding site [ion binding]; other site 1042156007003 G-X-G motif; other site 1042156007004 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1042156007005 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 1042156007006 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 1042156007007 Putative Fe-S cluster; Region: FeS; cl17515 1042156007008 DRTGG domain; Region: DRTGG; pfam07085 1042156007009 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 1042156007010 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 1042156007011 active site 1042156007012 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 1042156007013 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1042156007014 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1042156007015 HIGH motif; other site 1042156007016 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1042156007017 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042156007018 active site 1042156007019 KMSKS motif; other site 1042156007020 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1042156007021 tRNA binding surface [nucleotide binding]; other site 1042156007022 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1042156007023 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 1042156007024 elongation factor G; Reviewed; Region: PRK12740 1042156007025 G1 box; other site 1042156007026 putative GEF interaction site [polypeptide binding]; other site 1042156007027 GTP/Mg2+ binding site [chemical binding]; other site 1042156007028 Switch I region; other site 1042156007029 G2 box; other site 1042156007030 G3 box; other site 1042156007031 Switch II region; other site 1042156007032 G4 box; other site 1042156007033 G5 box; other site 1042156007034 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 1042156007035 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 1042156007036 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 1042156007037 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 1042156007038 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 1042156007039 prephenate dehydrogenase; Validated; Region: PRK08507 1042156007040 prephenate dehydrogenase; Validated; Region: PRK06545 1042156007041 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156007042 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1042156007043 FeS/SAM binding site; other site 1042156007044 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1042156007045 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1042156007046 substrate binding pocket [chemical binding]; other site 1042156007047 chain length determination region; other site 1042156007048 substrate-Mg2+ binding site; other site 1042156007049 catalytic residues [active] 1042156007050 aspartate-rich region 1; other site 1042156007051 active site lid residues [active] 1042156007052 aspartate-rich region 2; other site 1042156007053 UbiA prenyltransferase family; Region: UbiA; pfam01040 1042156007054 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 1042156007055 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1042156007056 oxidoreductase; Provisional; Region: PRK10015 1042156007057 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042156007058 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1042156007059 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 1042156007060 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042156007061 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042156007062 active site 1042156007063 phosphorylation site [posttranslational modification] 1042156007064 intermolecular recognition site; other site 1042156007065 dimerization interface [polypeptide binding]; other site 1042156007066 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1042156007067 DNA binding residues [nucleotide binding] 1042156007068 dimerization interface [polypeptide binding]; other site 1042156007069 GAF domain; Region: GAF; pfam01590 1042156007070 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1042156007071 Histidine kinase; Region: HisKA_3; pfam07730 1042156007072 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042156007073 ATP binding site [chemical binding]; other site 1042156007074 Mg2+ binding site [ion binding]; other site 1042156007075 G-X-G motif; other site 1042156007076 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1042156007077 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1042156007078 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156007079 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1042156007080 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1042156007081 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1042156007082 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1042156007083 Ligand binding site [chemical binding]; other site 1042156007084 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1042156007085 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1042156007086 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 1042156007087 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 1042156007088 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1042156007089 4Fe-4S binding domain; Region: Fer4; cl02805 1042156007090 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1042156007091 DMSO reductase family type II enzyme, molybdopterin subunit; Region: DMSO_red_II_alp; TIGR03479 1042156007092 molybdopterin cofactor binding site; other site 1042156007093 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1042156007094 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1042156007095 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 1042156007096 molybdopterin cofactor binding site; other site 1042156007097 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042156007098 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 1042156007099 putative active site [active] 1042156007100 nucleotide binding site [chemical binding]; other site 1042156007101 nudix motif; other site 1042156007102 putative metal binding site [ion binding]; other site 1042156007103 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1042156007104 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1042156007105 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1042156007106 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 1042156007107 putative tRNA-binding site [nucleotide binding]; other site 1042156007108 B3/4 domain; Region: B3_4; pfam03483 1042156007109 tRNA synthetase B5 domain; Region: B5; smart00874 1042156007110 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 1042156007111 dimer interface [polypeptide binding]; other site 1042156007112 motif 1; other site 1042156007113 motif 3; other site 1042156007114 motif 2; other site 1042156007115 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1042156007116 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1042156007117 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1042156007118 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 1042156007119 dimer interface [polypeptide binding]; other site 1042156007120 motif 1; other site 1042156007121 active site 1042156007122 motif 2; other site 1042156007123 motif 3; other site 1042156007124 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1042156007125 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1042156007126 active site 1042156007127 catalytic motif [active] 1042156007128 Zn binding site [ion binding]; other site 1042156007129 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1042156007130 intersubunit interface [polypeptide binding]; other site 1042156007131 active site 1042156007132 catalytic residue [active] 1042156007133 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1042156007134 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1042156007135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042156007136 catalytic residue [active] 1042156007137 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 1042156007138 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1042156007139 substrate binding site [chemical binding]; other site 1042156007140 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1042156007141 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1042156007142 substrate binding site [chemical binding]; other site 1042156007143 ligand binding site [chemical binding]; other site 1042156007144 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1042156007145 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1042156007146 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1042156007147 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1042156007148 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1042156007149 putative valine binding site [chemical binding]; other site 1042156007150 dimer interface [polypeptide binding]; other site 1042156007151 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1042156007152 Putative glucose-1-phosphate thymidylyltransferase, C-terminal Left-handed parallel beta-Helix (LbH) domain: Proteins in this family show simlarity to glucose-1-phosphate adenylyltransferases in that they contain N-terminal catalytic domains that...; Region: LbH_G1P_TT_C_like; cd05636 1042156007153 DNA topoisomerase III; Provisional; Region: PRK07726 1042156007154 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1042156007155 active site 1042156007156 putative interdomain interaction site [polypeptide binding]; other site 1042156007157 putative metal-binding site [ion binding]; other site 1042156007158 putative nucleotide binding site [chemical binding]; other site 1042156007159 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 1042156007160 domain I; other site 1042156007161 DNA binding groove [nucleotide binding] 1042156007162 phosphate binding site [ion binding]; other site 1042156007163 domain II; other site 1042156007164 domain III; other site 1042156007165 nucleotide binding site [chemical binding]; other site 1042156007166 catalytic site [active] 1042156007167 domain IV; other site 1042156007168 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 1042156007169 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1042156007170 argininosuccinate lyase; Provisional; Region: PRK00855 1042156007171 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1042156007172 active sites [active] 1042156007173 tetramer interface [polypeptide binding]; other site 1042156007174 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 1042156007175 glycogen synthase; Provisional; Region: glgA; PRK00654 1042156007176 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1042156007177 ADP-binding pocket [chemical binding]; other site 1042156007178 homodimer interface [polypeptide binding]; other site 1042156007179 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1042156007180 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1042156007181 Walker A/P-loop; other site 1042156007182 ATP binding site [chemical binding]; other site 1042156007183 Q-loop/lid; other site 1042156007184 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1042156007185 ABC transporter signature motif; other site 1042156007186 Walker B; other site 1042156007187 D-loop; other site 1042156007188 H-loop/switch region; other site 1042156007189 arginine repressor; Provisional; Region: argR; PRK00441 1042156007190 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1042156007191 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1042156007192 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 1042156007193 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1042156007194 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1042156007195 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042156007196 RNA binding surface [nucleotide binding]; other site 1042156007197 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1042156007198 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1042156007199 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 1042156007200 TPP-binding site; other site 1042156007201 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1042156007202 PYR/PP interface [polypeptide binding]; other site 1042156007203 dimer interface [polypeptide binding]; other site 1042156007204 TPP binding site [chemical binding]; other site 1042156007205 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042156007206 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1042156007207 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1042156007208 substrate binding pocket [chemical binding]; other site 1042156007209 chain length determination region; other site 1042156007210 substrate-Mg2+ binding site; other site 1042156007211 catalytic residues [active] 1042156007212 aspartate-rich region 1; other site 1042156007213 active site lid residues [active] 1042156007214 aspartate-rich region 2; other site 1042156007215 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 1042156007216 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1042156007217 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 1042156007218 generic binding surface II; other site 1042156007219 generic binding surface I; other site 1042156007220 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1042156007221 putative RNA binding site [nucleotide binding]; other site 1042156007222 Asp23 family; Region: Asp23; pfam03780 1042156007223 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1042156007224 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 1042156007225 nucleotide binding pocket [chemical binding]; other site 1042156007226 K-X-D-G motif; other site 1042156007227 catalytic site [active] 1042156007228 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1042156007229 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1042156007230 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 1042156007231 Dimer interface [polypeptide binding]; other site 1042156007232 BRCT sequence motif; other site 1042156007233 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1042156007234 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1042156007235 RNA binding surface [nucleotide binding]; other site 1042156007236 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1042156007237 active site 1042156007238 Bacterial SH3 domain; Region: SH3_3; pfam08239 1042156007239 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156007240 domain interaction interfaces [polypeptide binding]; other site 1042156007241 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156007242 domain interaction interfaces [polypeptide binding]; other site 1042156007243 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156007244 domain interaction interfaces [polypeptide binding]; other site 1042156007245 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156007246 domain interaction interfaces [polypeptide binding]; other site 1042156007247 shikimate kinase; Reviewed; Region: aroK; PRK00131 1042156007248 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 1042156007249 ADP binding site [chemical binding]; other site 1042156007250 magnesium binding site [ion binding]; other site 1042156007251 putative shikimate binding site; other site 1042156007252 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1042156007253 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1042156007254 active site 1042156007255 catalytic residue [active] 1042156007256 dimer interface [polypeptide binding]; other site 1042156007257 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 1042156007258 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1042156007259 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1042156007260 shikimate binding site; other site 1042156007261 NAD(P) binding site [chemical binding]; other site 1042156007262 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1042156007263 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1042156007264 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1042156007265 dimer interface [polypeptide binding]; other site 1042156007266 ADP-ribose binding site [chemical binding]; other site 1042156007267 active site 1042156007268 nudix motif; other site 1042156007269 metal binding site [ion binding]; metal-binding site 1042156007270 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 1042156007271 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1042156007272 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1042156007273 Ligand Binding Site [chemical binding]; other site 1042156007274 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1042156007275 GTP cyclohydrolase I; Provisional; Region: PLN03044 1042156007276 active site 1042156007277 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 1042156007278 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156007279 FeS/SAM binding site; other site 1042156007280 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1042156007281 active site 1042156007282 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1042156007283 RNA binding site [nucleotide binding]; other site 1042156007284 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 1042156007285 RNA binding site [nucleotide binding]; other site 1042156007286 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1042156007287 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1042156007288 Catalytic site [active] 1042156007289 serine O-acetyltransferase; Region: cysE; TIGR01172 1042156007290 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 1042156007291 trimer interface [polypeptide binding]; other site 1042156007292 active site 1042156007293 substrate binding site [chemical binding]; other site 1042156007294 CoA binding site [chemical binding]; other site 1042156007295 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1042156007296 active site 1042156007297 putative catalytic site [active] 1042156007298 DNA binding site [nucleotide binding] 1042156007299 putative phosphate binding site [ion binding]; other site 1042156007300 metal binding site A [ion binding]; metal-binding site 1042156007301 AP binding site [nucleotide binding]; other site 1042156007302 metal binding site B [ion binding]; metal-binding site 1042156007303 phosphodiesterase; Provisional; Region: PRK12704 1042156007304 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042156007305 Zn2+ binding site [ion binding]; other site 1042156007306 Mg2+ binding site [ion binding]; other site 1042156007307 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1042156007308 recombinase A; Provisional; Region: recA; PRK09354 1042156007309 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 1042156007310 hexamer interface [polypeptide binding]; other site 1042156007311 Walker A motif; other site 1042156007312 ATP binding site [chemical binding]; other site 1042156007313 Walker B motif; other site 1042156007314 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1042156007315 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1042156007316 G1 box; other site 1042156007317 putative GEF interaction site [polypeptide binding]; other site 1042156007318 GTP/Mg2+ binding site [chemical binding]; other site 1042156007319 Switch I region; other site 1042156007320 G2 box; other site 1042156007321 G3 box; other site 1042156007322 Switch II region; other site 1042156007323 G4 box; other site 1042156007324 G5 box; other site 1042156007325 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1042156007326 phosphopentomutase; Provisional; Region: PRK05362 1042156007327 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1042156007328 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1042156007329 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1042156007330 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 1042156007331 motif 1; other site 1042156007332 active site 1042156007333 motif 2; other site 1042156007334 motif 3; other site 1042156007335 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1042156007336 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1042156007337 RNA/DNA hybrid binding site [nucleotide binding]; other site 1042156007338 active site 1042156007339 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1042156007340 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 1042156007341 active site 1042156007342 putative substrate binding pocket [chemical binding]; other site 1042156007343 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1042156007344 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1042156007345 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1042156007346 DEAD_2; Region: DEAD_2; pfam06733 1042156007347 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1042156007348 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 1042156007349 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 1042156007350 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1042156007351 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 1042156007352 active site 1042156007353 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1042156007354 Family of unknown function (DUF633); Region: DUF633; pfam04816 1042156007355 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1042156007356 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1042156007357 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042156007358 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1042156007359 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1042156007360 DNA binding residues [nucleotide binding] 1042156007361 DNA primase; Validated; Region: dnaG; PRK05667 1042156007362 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1042156007363 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1042156007364 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 1042156007365 active site 1042156007366 metal binding site [ion binding]; metal-binding site 1042156007367 interdomain interaction site; other site 1042156007368 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1042156007369 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1042156007370 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042156007371 Zn2+ binding site [ion binding]; other site 1042156007372 Mg2+ binding site [ion binding]; other site 1042156007373 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1042156007374 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1042156007375 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1042156007376 active site 1042156007377 ATP binding site [chemical binding]; other site 1042156007378 substrate binding site [chemical binding]; other site 1042156007379 activation loop (A-loop); other site 1042156007380 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1042156007381 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1042156007382 Coenzyme A binding pocket [chemical binding]; other site 1042156007383 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1042156007384 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1042156007385 DNA binding residues [nucleotide binding] 1042156007386 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1042156007387 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042156007388 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042156007389 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1042156007390 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1042156007391 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042156007392 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1042156007393 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1042156007394 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1042156007395 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1042156007396 ornithine cyclodeaminase; Validated; Region: PRK06199 1042156007397 Ornithine cyclodeaminase/mu-crystallin family; Region: OCD_Mu_crystall; pfam02423 1042156007398 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1042156007399 Integrase core domain; Region: rve_2; pfam13333 1042156007400 Integrase core domain; Region: rve; pfam00665 1042156007401 Gcd10p family; Region: Gcd10p; pfam04189 1042156007402 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 1042156007403 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1042156007404 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156007405 FeS/SAM binding site; other site 1042156007406 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 1042156007407 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156007408 FeS/SAM binding site; other site 1042156007409 Transposase; Region: HTH_Tnp_1; cl17663 1042156007410 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042156007411 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042156007412 MULE transposase domain; Region: MULE; pfam10551 1042156007413 Transposase; Region: HTH_Tnp_1; pfam01527 1042156007414 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042156007415 putative transposase OrfB; Reviewed; Region: PHA02517 1042156007416 HTH-like domain; Region: HTH_21; pfam13276 1042156007417 Integrase core domain; Region: rve; pfam00665 1042156007418 Integrase core domain; Region: rve_2; pfam13333 1042156007419 putative transposase OrfB; Reviewed; Region: PHA02517 1042156007420 HTH-like domain; Region: HTH_21; pfam13276 1042156007421 Integrase core domain; Region: rve; pfam00665 1042156007422 Integrase core domain; Region: rve_2; pfam13333 1042156007423 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1042156007424 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 1042156007425 tetramer interface [polypeptide binding]; other site 1042156007426 active site 1042156007427 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1042156007428 ATP binding site [chemical binding]; other site 1042156007429 active site 1042156007430 substrate binding site [chemical binding]; other site 1042156007431 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1042156007432 phosphoglyceromutase; Provisional; Region: PRK05434 1042156007433 triosephosphate isomerase; Provisional; Region: PRK14567 1042156007434 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 1042156007435 substrate binding site [chemical binding]; other site 1042156007436 dimer interface [polypeptide binding]; other site 1042156007437 catalytic triad [active] 1042156007438 Phosphoglycerate kinase; Region: PGK; pfam00162 1042156007439 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1042156007440 substrate binding site [chemical binding]; other site 1042156007441 hinge regions; other site 1042156007442 ADP binding site [chemical binding]; other site 1042156007443 catalytic site [active] 1042156007444 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1042156007445 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1042156007446 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1042156007447 histidinol-phosphatase; Provisional; Region: PRK05588 1042156007448 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1042156007449 active site 1042156007450 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1042156007451 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1042156007452 active site 1042156007453 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1042156007454 elongation factor P; Validated; Region: PRK00529 1042156007455 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1042156007456 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 1042156007457 RNA binding site [nucleotide binding]; other site 1042156007458 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 1042156007459 RNA binding site [nucleotide binding]; other site 1042156007460 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 1042156007461 HAD superfamily (subfamily IIIA) phosphatase, TIGR01668; Region: YqeG_hyp_ppase 1042156007462 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1042156007463 active site 1042156007464 motif I; other site 1042156007465 motif II; other site 1042156007466 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1042156007467 ATP cone domain; Region: ATP-cone; pfam03477 1042156007468 GTP-binding protein YchF; Reviewed; Region: PRK09601 1042156007469 YchF GTPase; Region: YchF; cd01900 1042156007470 G1 box; other site 1042156007471 GTP/Mg2+ binding site [chemical binding]; other site 1042156007472 Switch I region; other site 1042156007473 G2 box; other site 1042156007474 Switch II region; other site 1042156007475 G3 box; other site 1042156007476 G4 box; other site 1042156007477 G5 box; other site 1042156007478 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 1042156007479 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1042156007480 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 1042156007481 Int/Topo IB signature motif; other site 1042156007482 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 1042156007483 hypothetical protein; Validated; Region: PRK08116 1042156007484 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042156007485 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1042156007486 ATP-grasp ribosomal peptide maturase, SAV_5884 family; Region: GRASP_SAV_5884; TIGR04187 1042156007487 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042156007488 VanZ like family; Region: VanZ; cl01971 1042156007489 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042156007490 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156007491 salt bridge; other site 1042156007492 non-specific DNA binding site [nucleotide binding]; other site 1042156007493 sequence-specific DNA binding site [nucleotide binding]; other site 1042156007494 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1042156007495 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1042156007496 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1042156007497 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1042156007498 AAA ATPase domain; Region: AAA_16; pfam13191 1042156007499 Archaeal ATPase; Region: Arch_ATPase; pfam01637 1042156007500 Walker A motif; other site 1042156007501 ATP binding site [chemical binding]; other site 1042156007502 Walker B motif; other site 1042156007503 arginine finger; other site 1042156007504 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 1042156007505 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1042156007506 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1042156007507 putative active site [active] 1042156007508 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 1042156007509 ArsC family; Region: ArsC; pfam03960 1042156007510 putative ArsC-like catalytic residues; other site 1042156007511 putative TRX-like catalytic residues [active] 1042156007512 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042156007513 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042156007514 active site 1042156007515 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1042156007516 Coenzyme A transferase; Region: CoA_trans; smart00882 1042156007517 Coenzyme A transferase; Region: CoA_trans; cl17247 1042156007518 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156007519 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1042156007520 putative substrate translocation pore; other site 1042156007521 SnoaL-like domain; Region: SnoaL_4; pfam13577 1042156007522 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042156007523 MULE transposase domain; Region: MULE; pfam10551 1042156007524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156007525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156007526 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1042156007527 dimerization interface [polypeptide binding]; other site 1042156007528 substrate binding pocket [chemical binding]; other site 1042156007529 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 1042156007530 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 1042156007531 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1042156007532 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1042156007533 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1042156007534 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1042156007535 NADP binding site [chemical binding]; other site 1042156007536 active site 1042156007537 putative substrate binding site [chemical binding]; other site 1042156007538 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1042156007539 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1042156007540 NAD binding site [chemical binding]; other site 1042156007541 substrate binding site [chemical binding]; other site 1042156007542 homodimer interface [polypeptide binding]; other site 1042156007543 active site 1042156007544 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1042156007545 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1042156007546 substrate binding site; other site 1042156007547 tetramer interface; other site 1042156007548 LicD family; Region: LicD; cl01378 1042156007549 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1042156007550 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1042156007551 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1042156007552 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042156007553 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1042156007554 active site 1042156007555 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 1042156007556 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 1042156007557 trimer interface [polypeptide binding]; other site 1042156007558 active site 1042156007559 substrate binding site [chemical binding]; other site 1042156007560 CoA binding site [chemical binding]; other site 1042156007561 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1042156007562 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1042156007563 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1042156007564 active site 1042156007565 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1042156007566 Transposase; Region: HTH_Tnp_1; pfam01527 1042156007567 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042156007568 putative transposase OrfB; Reviewed; Region: PHA02517 1042156007569 HTH-like domain; Region: HTH_21; pfam13276 1042156007570 Integrase core domain; Region: rve; pfam00665 1042156007571 Integrase core domain; Region: rve_2; pfam13333 1042156007572 putative transposase OrfB; Reviewed; Region: PHA02517 1042156007573 HTH-like domain; Region: HTH_21; pfam13276 1042156007574 Integrase core domain; Region: rve; pfam00665 1042156007575 Integrase core domain; Region: rve_2; pfam13333 1042156007576 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1042156007577 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042156007578 catalytic residue [active] 1042156007579 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1042156007580 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1042156007581 NAD(P) binding site [chemical binding]; other site 1042156007582 homodimer interface [polypeptide binding]; other site 1042156007583 substrate binding site [chemical binding]; other site 1042156007584 active site 1042156007585 Herpesvirus glycoprotein H; Region: Herpes_glycop_H; pfam02489 1042156007586 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1042156007587 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1042156007588 Chain length determinant protein; Region: Wzz; cl15801 1042156007589 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1042156007590 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1042156007591 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1042156007592 hypothetical protein; Provisional; Region: PRK10621 1042156007593 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042156007594 UreD urease accessory protein; Region: UreD; cl00530 1042156007595 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042156007596 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1042156007597 G1 box; other site 1042156007598 GTP/Mg2+ binding site [chemical binding]; other site 1042156007599 G2 box; other site 1042156007600 Switch I region; other site 1042156007601 G3 box; other site 1042156007602 Switch II region; other site 1042156007603 G4 box; other site 1042156007604 G5 box; other site 1042156007605 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1042156007606 Region: UreF; pfam01730 1042156007607 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1042156007608 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 1042156007609 dimer interface [polypeptide binding]; other site 1042156007610 catalytic residues [active] 1042156007611 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 1042156007612 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1042156007613 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1042156007614 subunit interactions [polypeptide binding]; other site 1042156007615 active site 1042156007616 flap region; other site 1042156007617 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1042156007618 gamma-beta subunit interface [polypeptide binding]; other site 1042156007619 alpha-beta subunit interface [polypeptide binding]; other site 1042156007620 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1042156007621 alpha-gamma subunit interface [polypeptide binding]; other site 1042156007622 beta-gamma subunit interface [polypeptide binding]; other site 1042156007623 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1042156007624 active site 1042156007625 metal binding site [ion binding]; metal-binding site 1042156007626 homotetramer interface [polypeptide binding]; other site 1042156007627 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042156007628 Coenzyme A binding pocket [chemical binding]; other site 1042156007629 Collagen binding domain; Region: Collagen_bind; pfam05737 1042156007630 Cna protein B-type domain; Region: Cna_B; pfam05738 1042156007631 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156007632 domain interaction interfaces [polypeptide binding]; other site 1042156007633 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156007634 domain interaction interfaces [polypeptide binding]; other site 1042156007635 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156007636 domain interaction interfaces [polypeptide binding]; other site 1042156007637 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 1042156007638 domain interaction interfaces [polypeptide binding]; other site 1042156007639 LytTr DNA-binding domain; Region: LytTR; smart00850 1042156007640 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 1042156007641 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1042156007642 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1042156007643 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1042156007644 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1042156007645 non-specific DNA binding site [nucleotide binding]; other site 1042156007646 salt bridge; other site 1042156007647 sequence-specific DNA binding site [nucleotide binding]; other site 1042156007648 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042156007649 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042156007650 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1042156007651 Predicted transcriptional regulator [Transcription]; Region: COG1959 1042156007652 Transcriptional regulator; Region: Rrf2; pfam02082 1042156007653 Transcriptional regulator; Region: Rrf2; cl17282 1042156007654 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156007655 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 1042156007656 4Fe-4S binding domain; Region: Fer4; pfam00037 1042156007657 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 1042156007658 FMN binding site [chemical binding]; other site 1042156007659 dimer interface [polypeptide binding]; other site 1042156007660 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042156007661 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042156007662 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1042156007663 dimerization interface [polypeptide binding]; other site 1042156007664 Predicted membrane protein [Function unknown]; Region: COG2364 1042156007665 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1042156007666 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1042156007667 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1042156007668 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1042156007669 active site 1042156007670 8-oxo-dGMP binding site [chemical binding]; other site 1042156007671 nudix motif; other site 1042156007672 metal binding site [ion binding]; metal-binding site 1042156007673 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 1042156007674 putative deacylase active site [active] 1042156007675 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1042156007676 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 1042156007677 PLD-like domain; Region: PLDc_2; pfam13091 1042156007678 putative homodimer interface [polypeptide binding]; other site 1042156007679 putative active site [active] 1042156007680 catalytic site [active] 1042156007681 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1042156007682 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042156007683 ATP binding site [chemical binding]; other site 1042156007684 putative Mg++ binding site [ion binding]; other site 1042156007685 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1042156007686 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1042156007687 nucleotide binding region [chemical binding]; other site 1042156007688 ATP-binding site [chemical binding]; other site 1042156007689 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 1042156007690 maltose O-acetyltransferase; Provisional; Region: PRK10092 1042156007691 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1042156007692 trimer interface [polypeptide binding]; other site 1042156007693 active site 1042156007694 substrate binding site [chemical binding]; other site 1042156007695 CoA binding site [chemical binding]; other site 1042156007696 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042156007697 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042156007698 DNA-binding site [nucleotide binding]; DNA binding site 1042156007699 FCD domain; Region: FCD; pfam07729 1042156007700 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042156007701 FAD binding domain; Region: FAD_binding_4; pfam01565 1042156007702 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1042156007703 Thiamine pyrophosphokinase; Region: TPK; cd07995 1042156007704 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1042156007705 active site 1042156007706 dimerization interface [polypeptide binding]; other site 1042156007707 thiamine binding site [chemical binding]; other site 1042156007708 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1042156007709 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 1042156007710 substrate binding site [chemical binding]; other site 1042156007711 hexamer interface [polypeptide binding]; other site 1042156007712 metal binding site [ion binding]; metal-binding site 1042156007713 GTPase RsgA; Reviewed; Region: PRK00098 1042156007714 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 1042156007715 RNA binding site [nucleotide binding]; other site 1042156007716 homodimer interface [polypeptide binding]; other site 1042156007717 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1042156007718 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1042156007719 GTP/Mg2+ binding site [chemical binding]; other site 1042156007720 G4 box; other site 1042156007721 G5 box; other site 1042156007722 G1 box; other site 1042156007723 Switch I region; other site 1042156007724 G2 box; other site 1042156007725 G3 box; other site 1042156007726 Switch II region; other site 1042156007727 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1042156007728 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1042156007729 active site 1042156007730 ATP binding site [chemical binding]; other site 1042156007731 substrate binding site [chemical binding]; other site 1042156007732 activation loop (A-loop); other site 1042156007733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1042156007734 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1042156007735 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1042156007736 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1042156007737 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1042156007738 active site 1042156007739 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 1042156007740 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1042156007741 FeS/SAM binding site; other site 1042156007742 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1042156007743 NusB family; Region: NusB; pfam01029 1042156007744 putative RNA binding site [nucleotide binding]; other site 1042156007745 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1042156007746 S-adenosylmethionine binding site [chemical binding]; other site 1042156007747 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 1042156007748 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1042156007749 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1042156007750 putative active site [active] 1042156007751 substrate binding site [chemical binding]; other site 1042156007752 putative cosubstrate binding site; other site 1042156007753 catalytic site [active] 1042156007754 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1042156007755 substrate binding site [chemical binding]; other site 1042156007756 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 1042156007757 active site 1042156007758 catalytic residues [active] 1042156007759 metal binding site [ion binding]; metal-binding site 1042156007760 primosome assembly protein PriA; Validated; Region: PRK05580 1042156007761 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1042156007762 ATP binding site [chemical binding]; other site 1042156007763 putative Mg++ binding site [ion binding]; other site 1042156007764 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1042156007765 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1042156007766 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1042156007767 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1042156007768 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 1042156007769 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 1042156007770 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 1042156007771 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1042156007772 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042156007773 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1042156007774 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1042156007775 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1042156007776 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1042156007777 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042156007778 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042156007779 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042156007780 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1042156007781 TrkA-N domain; Region: TrkA_N; pfam02254 1042156007782 TrkA-C domain; Region: TrkA_C; pfam02080 1042156007783 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1042156007784 Cation transport protein; Region: TrkH; pfam02386 1042156007785 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1042156007786 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1042156007787 putative uracil binding site [chemical binding]; other site 1042156007788 putative active site [active]